Diff of the two buildlogs: -- --- b1/build.log 2024-01-07 12:11:06.355313894 +0000 +++ b2/build.log 2024-01-07 12:46:38.501386741 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat Feb 8 06:04:59 -12 2025 -I: pbuilder-time-stamp: 1739037899 +I: Current time: Mon Jan 8 02:11:16 +14 2024 +I: pbuilder-time-stamp: 1704629476 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration @@ -46,49 +46,81 @@ dpkg-source: info: applying tune_lmdb_defaults I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3296749/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/855645/tmp/hooks/D01_modify_environment starting +debug: Running on codethink04-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Jan 7 12:11 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/855645/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/855645/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="15" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.15(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='bookworm' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='924d0d893a014cf7b54e54109e2e9645' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='3296749' - PS1='# ' - PS2='> ' + INVOCATION_ID=3161549244a24fb3bf1c2ad23fbfa4ab + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=855645 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.BGGZ1OW8/pbuilderrc_Jku6 --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.BGGZ1OW8/b1 --logfile b1/build.log ncbi-blast+_2.12.0+ds-3.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.104:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.BGGZ1OW8/pbuilderrc_MP6X --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.BGGZ1OW8/b2 --logfile b2/build.log ncbi-blast+_2.12.0+ds-3.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.104:3128 I: uname -a - Linux codethink03-arm64 6.1.0-17-cloud-arm64 #1 SMP Debian 6.1.69-1 (2023-12-30) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-17-cloud-arm64 #1 SMP Debian 6.1.69-1 (2023-12-30) aarch64 GNU/Linux I: ls -l /bin total 7104 -rwxr-xr-x 1 root root 1346480 Apr 23 2023 bash @@ -146,15 +178,15 @@ -rwxr-xr-x 1 root root 68456 Sep 20 2022 readlink -rwxr-xr-x 1 root root 68592 Sep 20 2022 rm -rwxr-xr-x 1 root root 68480 Sep 20 2022 rmdir - -rwxr-xr-x 1 root root 68392 Jul 28 2023 run-parts + -rwxr-xr-x 1 root root 68392 Jul 28 23:46 run-parts -rwxr-xr-x 1 root root 134536 Jan 5 2023 sed - lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash + lrwxrwxrwx 1 root root 9 Jan 7 12:11 sh -> /bin/bash -rwxr-xr-x 1 root root 68432 Sep 20 2022 sleep -rwxr-xr-x 1 root root 134088 Sep 20 2022 stty -rwsr-xr-x 1 root root 133312 Mar 23 2023 su -rwxr-xr-x 1 root root 68448 Sep 20 2022 sync -rwxr-xr-x 1 root root 539896 Apr 6 2023 tar - -rwxr-xr-x 1 root root 67904 Jul 28 2023 tempfile + -rwxr-xr-x 1 root root 67904 Jul 28 23:46 tempfile -rwxr-xr-x 1 root root 134160 Sep 20 2022 touch -rwxr-xr-x 1 root root 68384 Sep 20 2022 true -rwxr-xr-x 1 root root 67664 Mar 23 2023 ulockmgr_server @@ -174,7 +206,7 @@ -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew -I: user script /srv/workspace/pbuilder/3296749/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/855645/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -305,7 +337,7 @@ Get: 73 http://deb.debian.org/debian bookworm/main arm64 libpcre3-dev arm64 2:8.39-15 [584 kB] Get: 74 http://deb.debian.org/debian bookworm/main arm64 time arm64 1.9-0.2 [50.6 kB] Get: 75 http://deb.debian.org/debian bookworm/main arm64 zlib1g-dev arm64 1:1.2.13.dfsg-1 [913 kB] -Fetched 44.3 MB in 1s (75.0 MB/s) +Fetched 44.3 MB in 0s (99.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18171 files and directories currently installed.) @@ -622,7 +654,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../ncbi-blast+_2.12.0+ds-3_source.changes +I: user script /srv/workspace/pbuilder/855645/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for bookworm +I: user script /srv/workspace/pbuilder/855645/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../ncbi-blast+_2.12.0+ds-3_source.changes dpkg-buildpackage: info: source package ncbi-blast+ dpkg-buildpackage: info: source version 2.12.0+ds-3 dpkg-buildpackage: info: source distribution unstable @@ -654,78 +690,78 @@ done ) ; \ ) ; \ done -/bin/sh: 2: cd: can't cd to c++/src/objects/CMakeLists.txt -/bin/sh: 2: cd: can't cd to c++/src/objects/Makefile.in -/bin/sh: 2: cd: can't cd to c++/src/objects/Makefile.sources -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 2: cd: can't cd to c++/src/objects/nt_sources.cmd -/bin/sh: 2: cd: can't cd to c++/src/objects/nt_sources.sh -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found -/bin/sh: 6: ../../../BUILD/build/new_module.sh: not found +/bin/sh: line 2: cd: c++/src/objects/CMakeLists.txt: Not a directory +/bin/sh: line 2: cd: c++/src/objects/Makefile.in: Not a directory +/bin/sh: line 2: cd: c++/src/objects/Makefile.sources: Not a directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 2: cd: c++/src/objects/nt_sources.cmd: Not a directory +/bin/sh: line 2: cd: c++/src/objects/nt_sources.sh: Not a directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory +/bin/sh: line 6: ../../../BUILD/build/new_module.sh: No such file or directory make[1]: [debian/rules:148: override_dh_clean] Error 127 (ignored) rm -rf c++/compilers/dll c++/config.log c++/Makefile rm -f c++/configure.lineno c++/src/objects/blastxml/blastxml.module @@ -5438,930 +5474,940 @@ make[3]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' make[3]: warning: -j12 forced in submake: resetting jobserver mode. cd corelib/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd util/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd util/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources cd serial/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd serial/datatool/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/composition_adjustment/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd util/tables/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd connect/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/core/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[4]: Nothing to be done for 'sources'. +cd connect/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd util/sequtil/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -cd objtools/blast/services/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd algo/blast/core/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -cd objmgr/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -cd objtools/blast/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +cd util/sequtil/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `export-headers'. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -cd objtools/logging/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `export-headers'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' /usr/bin/make[4] (Makefile.serial.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/readers/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.connssl.lib): Nothing to be done for `export-headers'. +cd objtools/blast/services/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.composition_adjustment.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -/usr/bin/make[4] (Makefile.composition_adjustment.lib): Nothing to be done for `export-headers'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -/usr/bin/make[4] (Makefile.tables.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -cd objmgr/util/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +cd objmgr/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -cd objtools/seqmasks_io/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.tables.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +cd objtools/blast/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +cd objtools/logging/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +cd objtools/readers/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +/usr/bin/make[4] (Makefile.cserial.lib): Nothing to be done for `export-headers'. +cd objmgr/util/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.connect.lib): Nothing to be done for `export-headers'. +cd objtools/seqmasks_io/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make[5] (Makefile.precompile): Nothing to be done for `all'. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.blast.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -/usr/bin/make[4] (Makefile.cserial.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.connssl.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +cd util/profile/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -/usr/bin/make[4] (Makefile.blast.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' -cd util/profile/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources /usr/bin/make[4] (Makefile.sequtil.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.objmgr.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +cd algo/blast/dbindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -cd algo/blast/dbindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -/usr/bin/make[4] (Makefile.blast_services.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -cd algo/dustmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.objmgr.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -/usr/bin/make[4] (Makefile.logging.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -cd algo/winmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +/usr/bin/make[4] (Makefile.seqdb.lib): Nothing to be done for `export-headers'. +cd algo/dustmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +cd algo/winmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -/usr/bin/make[4] (Makefile.connect.lib): Nothing to be done for `export-headers'. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.seqdb.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -cd objtools/alnmgr/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +/usr/bin/make[4] (Makefile.logging.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +/usr/bin/make[4] (Makefile.blast_services.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' -cd algo/blast/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd objtools/alnmgr/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.xxconnect.lib): Nothing to be done for `export-headers'. make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.xobjread.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `export-headers'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -cd objtools/blast/gene_info_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -/usr/bin/make[4] (Makefile.seqmasks_io.lib): Nothing to be done for `export-headers'. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +cd algo/blast/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[5] (Makefile.precompile): Nothing to be done for `all'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -cd util/compress/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +cd objtools/blast/gene_info_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +/usr/bin/make[4] (Makefile.seqmasks_io.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +/usr/bin/make[4] (Makefile.xobjread.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +/usr/bin/make[4] (Makefile.utrtprof.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +cd util/compress/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' -/usr/bin/make[4] (Makefile.xxconnect.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.corelib.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.xalgodustmask.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -/usr/bin/make[4] (Makefile.xobjreadex.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -/usr/bin/make[4] (Makefile.utrtprof.lib): Nothing to be done for `export-headers'. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' -/usr/bin/make[4] (Makefile.xalgoblastdbindex.lib): Nothing to be done for `export-headers'. cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -/usr/bin/make[4] (Makefile.xalgodustmask.lib): Nothing to be done for `export-headers'. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' cd objtools/data_loaders/genbank/cache/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +/usr/bin/make[4] (Makefile.xconnect.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -cd objtools/data_loaders/genbank/id1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' /usr/bin/make[4] (Makefile.xalgowinmask.lib): Nothing to be done for `export-headers'. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' -/usr/bin/make[4] (Makefile.alnmgr.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.xblast.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -cd objtools/data_loaders/genbank/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd cgi/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -/usr/bin/make[4] (Makefile.xconnect.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +/usr/bin/make[4] (Makefile.xalgoblastdbindex.lib): Nothing to be done for `export-headers'. +cd objtools/data_loaders/genbank/id1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -/usr/bin/make[4] (Makefile.gene_info.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +cd objtools/data_loaders/genbank/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd html/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -/usr/bin/make[4] (Makefile.compress.lib): Nothing to be done for `export-headers'. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/LIBUV.enabled', needed by 'requirements'. Stop. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +NOTE: skipping project "xxconnect2" due to unmet requirements +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/align_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +/usr/bin/make[4] (Makefile.alnmgr.lib): Nothing to be done for `export-headers'. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -cd objtools/blast/blastdb_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +cd cgi/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +/usr/bin/make[4] (Makefile.xobjreadex.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/LIBUV.enabled', needed by 'requirements'. Stop. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -NOTE: skipping project "xxconnect2" due to unmet requirements -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.corelib.lib): Nothing to be done for `export-headers'. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +/usr/bin/make[4] (Makefile.xblast.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +cd html/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -/usr/bin/make[4] (Makefile.ncbi_xreader.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +/usr/bin/make[4] (Makefile.gene_info.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +/usr/bin/make[4] (Makefile.test_mt.lib): Nothing to be done for `export-headers'. +cd objtools/align_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.ncbi_xreader_id1.lib): Nothing to be done for `export-headers'. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +/usr/bin/make[4] (Makefile.compress.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +cd objtools/blast/blastdb_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources /usr/bin/make[4] (Makefile.ncbi_xreader_cache.lib): Nothing to be done for `export-headers'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -cd algo/blast/blastinput/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +/usr/bin/make[4] (Makefile.xthrserv.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.ncbi_xreader_id2.lib): Nothing to be done for `export-headers'. +cd algo/blast/blastinput/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.test_boost.lib): Nothing to be done for `export-headers'. +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +/usr/bin/make[4] (Makefile.cgi.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +cd objtools/eutils/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +cd algo/blast/proteinkmer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -/usr/bin/make[4] (Makefile.cgi.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -/usr/bin/make[4] (Makefile.ncbi_xreader_id1.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -/usr/bin/make[4] (Makefile.test_mt.lib): Nothing to be done for `export-headers'. -cd objtools/eutils/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +/usr/bin/make[4] (Makefile.html.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +cd connect/services/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.ncbi_xreader_id2.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -/usr/bin/make[4] (Makefile.xthrserv.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -cd algo/blast/proteinkmer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.ncbi_xreader.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.align_format.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.eutils.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -/usr/bin/make[4] (Makefile.blastdb_format.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -/usr/bin/make[4] (Makefile.ncbi_xloader_genbank.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +cd objtools/pubseq_gateway/client/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd connect/services/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.fcgi.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.blastdb_format.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.align_format.lib): Nothing to be done for `export-headers'. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/pubseq_gateway/client/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -/usr/bin/make[4] (Makefile.html.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd util/xregexp/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.fcgi.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.ncbi_xloader_blastdb.lib): Nothing to be done for `export-headers'. +cd util/xregexp/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +cd objtools/edit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.blastinput.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.proteinkmer.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.ncbi_xloader_genbank.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +cd objtools/cleanup/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.xconnserv.lib): Nothing to be done for `export-headers'. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +/usr/bin/make[4] (Makefile.ncbi_xloader_blastdb.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -/usr/bin/make[4] (Makefile.test_boost.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' -cd objtools/edit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/LIBUV.enabled', needed by 'requirements'. Stop. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' NOTE: skipping project "psg_client" due to unmet requirements -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.proteinkmer.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.blastinput.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/cleanup/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -cd objtools/format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' cd algo/blast/format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.eutils.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.ncbi_xloader_blastdb_rmt.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +/usr/bin/make[4] (Makefile.xregexp.lib): Nothing to be done for `export-headers'. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.xconnserv.lib): Nothing to be done for `export-headers'. -cd algo/blast/blastinput/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.ncbi_xloader_blastdb_rmt.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' -/usr/bin/make[4] (Makefile.xregexp.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +/usr/bin/make[4] (Makefile.ncbi_xcache_netcache.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +cd algo/blast/blastinput/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[4]: Nothing to be done for 'sources'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' -cd algo/blast/dbindex/makeindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.edit.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.xformat.lib): Nothing to be done for `export-headers'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +cd algo/blast/dbindex/makeindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/igblast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' -/usr/bin/make[4] (Makefile.ncbi_xcache_netcache.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +/usr/bin/make[4] (Makefile.cleanup.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +cd algo/blast/igblast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.xblastformat.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' +make[4]: Nothing to be done for 'sources'. cd objtools/simple/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.xregexp_template_tester.lib): Nothing to be done for `export-headers'. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/proteinkmer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -/usr/bin/make[4] (Makefile.xblastformat.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[4]: Nothing to be done for 'sources'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -/usr/bin/make[4] (Makefile.cleanup.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -cd algo/blast/unit_tests/blast_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -cd algo/blast/unit_tests/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Nothing to be done for 'sources'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -cd objtools/blast/seqdb_writer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.xregexp_template_tester.lib): Nothing to be done for `export-headers'. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -/usr/bin/make[4] (Makefile.xobjsimple.lib): Nothing to be done for `export-headers'. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' /usr/bin/make[4] (Makefile.ncbi_xblobstorage_netcache.lib): Nothing to be done for `export-headers'. -cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +cd algo/blast/unit_tests/blast_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.xformat.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +/usr/bin/make[4] (Makefile.igblast.lib): Nothing to be done for `export-headers'. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd algo/blast/unit_tests/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +/usr/bin/make[4] (Makefile.xobjsimple.lib): Nothing to be done for `export-headers'. +cd objtools/blast/seqdb_writer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Nothing to be done for 'sources'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.igblast.lib): Nothing to be done for `export-headers'. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Nothing to be done for 'sources'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Nothing to be done for 'sources'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' cd app/dustmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/make[4] (Makefile.blast_unit_test_util.lib): Nothing to be done for `export-headers'. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +cd algo/segmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -/usr/bin/make[4] (Makefile.blast_unit_test_util.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Nothing to be done for 'sources'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -cd algo/segmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.writedb.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' cd app/segmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -cd app/winmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd objmgr/split/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.seqalign_util.lib): Nothing to be done for `export-headers'. -cd objtools/align_format/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +cd app/winmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objmgr/split/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.seqalign_util.lib): Nothing to be done for `export-headers'. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.xalgosegmask.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +cd objtools/align_format/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +/usr/bin/make[4] (Makefile.writedb.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objtools/blast/blastdb_format/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' cd objtools/blast/gene_info_reader/demo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Nothing to be done for 'sources'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -cd objtools/blast/gene_info_reader/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd objtools/blast/seqdb_reader/demo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -cd objtools/blast/seqdb_reader/test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.legacy_blast builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all +/usr/bin/make[4] (Makefile.xalgosegmask.lib): Nothing to be done for `export-headers'. +make[4]: Nothing to be done for 'sources'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +cd objtools/blast/gene_info_reader/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +/usr/bin/make[4] (Makefile.id2_split.lib): Nothing to be done for `export-headers'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +cd objtools/blast/seqdb_reader/demo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/Makefile.windowmasker_2.2.22_adapter builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker -w -j12 --jobserver-auth=9,10 all +cd objtools/blast/seqdb_reader/test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/blast/services/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/blast/services/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd corelib/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=corelib UNIX_PROJ="" sources= configurables=configurables.null make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -/usr/bin/make[4] (Makefile.id2_split.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.legacy_blast builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all -cd corelib/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=corelib UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/composition_adjustment/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=composition_adjustment UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' make[4]: Nothing to be done for 'sources'. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -cd util/tables/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=tables UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/logging/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=logging UNIX_PROJ="" sources= configurables=configurables.null +cd util/tables/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=tables UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +cd objtools/logging/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=logging UNIX_PROJ="" sources= configurables=configurables.null cd util/profile/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=utrtprof UNIX_PROJ="" sources= configurables=configurables.null -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/Makefile.windowmasker_2.2.22_adapter builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker -w -j12 --jobserver-auth=9,10 all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/legacy_blast.pl /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/legacy_blast.pl /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/legacy_blast.pl make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make[4] (Makefile.corelib.lib): Nothing to be done for `all'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/tables TMPL=tables -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.update_blastdb builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/profile TMPL=utrtprof -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment TMPL=composition_adjustment -w -j12 --jobserver-auth=7,8 all +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/windowmasker_2.2.22_adapter.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/windowmasker_2.2.22_adapter.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/windowmasker_2.2.22_adapter.py +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +/usr/bin/make[4] (Makefile.corelib.lib): Nothing to be done for `all'. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/logging TMPL=logging -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' cd util/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=util UNIX_PROJ="" sources= configurables=configurables.null -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment TMPL=composition_adjustment -w -j12 --jobserver-auth=7,8 all -cd connect/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xconnect UNIX_PROJ="" sources= configurables=configurables.null -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.update_blastdb builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/profile TMPL=utrtprof -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/tables TMPL=tables -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd util/sequtil/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=sequtil UNIX_PROJ="" sources= configurables=configurables.null -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/logging TMPL=logging -w -j12 --jobserver-auth=7,8 all +cd connect/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xconnect UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd util/sequtil/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=sequtil UNIX_PROJ="" sources= configurables=configurables.null +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/blast/gene_info_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=gene_info UNIX_PROJ="" sources= configurables=configurables.null make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -cd objtools/blast/gene_info_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=gene_info UNIX_PROJ="" sources= configurables=configurables.null +cd html/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=html UNIX_PROJ="" sources= configurables=configurables.null make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/windowmasker_2.2.22_adapter.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/windowmasker_2.2.22_adapter.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/windowmasker_2.2.22_adapter.py -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/compo_heap.c -o compo_heap.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/compo_mode_condition.c -o compo_mode_condition.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/composition_adjustment.c -o composition_adjustment.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/matrix_frequency_data.c -o matrix_frequency_data.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/nlm_linear_algebra.c -o nlm_linear_algebra.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/imake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/imake[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `all'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/update_blastdb.pl /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/update_blastdb.pl /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/update_blastdb.pl +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -cd html/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=html UNIX_PROJ="" sources= configurables=configurables.null /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/compo_heap.c:137:1: warning: 's_CompoHeapIsValid' defined but not used [-Wunused-function] 137 | s_CompoHeapIsValid(BlastCompo_HeapRecord * heapArray, int i, int n) | ^~~~~~~~~~~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect TMPL=xconnect -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil TMPL=sequtil -w -j12 --jobserver-auth=7,8 all -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/run_with_lock: Adjusting base from make_xconnect to make__connect_common per /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/.#lock-map. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -cd corelib/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=test_boost UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `all'. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader TMPL=gene_info -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +cd corelib/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=test_boost UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/redo_alignment.c:200:1: warning: 's_DistinctAlignmentsLength' defined but not used [-Wunused-function] - 200 | s_DistinctAlignmentsLength(BlastCompo_Alignment * list) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/redo_alignment.c:185:1: warning: 's_AlignmentsAreSorted' defined but not used [-Wunused-function] - 185 | s_AlignmentsAreSorted(BlastCompo_Alignment * alignments) - | ^~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil TMPL=sequtil -w -j12 --jobserver-auth=7,8 all make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/update_blastdb.pl /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/update_blastdb.pl /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/update_blastdb.pl +make[6]: warning: -j12 forced in submake: resetting jobserver mode. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect TMPL=xconnect -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.get_species_taxids builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/run_with_lock: Adjusting base from make_xconnect to make__connect_common per /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/.#lock-map. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader TMPL=gene_info -w -j12 --jobserver-auth=7,8 all -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.get_species_taxids builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html TMPL=html -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/redo_alignment.c:200:1: warning: 's_DistinctAlignmentsLength' defined but not used [-Wunused-function] + 200 | s_DistinctAlignmentsLength(BlastCompo_Alignment * list) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/redo_alignment.c:185:1: warning: 's_AlignmentsAreSorted' defined but not used [-Wunused-function] + 185 | s_AlignmentsAreSorted(BlastCompo_Alignment * alignments) + | ^~~~~~~~~~~~~~~~~~~~~ +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.test_boost.lib): Nothing to be done for `all'. +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbsmd.h:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbsmd_stub.c:33: @@ -6371,9 +6417,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ | ^~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbsmd_stub.c -o ncbi_lbsmd_stub.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ansi_ext.c -o ncbi_ansi_ext.o @@ -6381,57 +6424,33 @@ /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_core.c -o ncbi_core.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.c -o ncbi_priv.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_util.c -o ncbi_util.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/buildmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:38, +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/buildIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_core.c:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiatomic.h: In function 'NCBI_SwapPointers': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiatomic.h:171:1: warning: no return statement in function returning non-void [-Wreturn-type] 171 | } | ^ -/usr/bin/make[4] (Makefile.test_boost.lib): Nothing to be done for `all'. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' cd util/xregexp/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xregexp UNIX_PROJ="" sources= configurables=configurables.null -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. /reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_buffer.c -o ncbi_buffer.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c -o ncbi_socket.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c -o ncbi_connector.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c -o ncbi_connection.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c -o ncbi_connutil.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ipv6.c -o ncbi_ipv6.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_util.c:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_util.c: In function 'CORE_SetLOGFILE_NAME_Ex': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_util.c:153:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 153 | CORE_LOGF_ERRNO_X(1, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:76: +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/node.cpp -o node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/html.cpp -o html.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/htmlhelper.cpp -o htmlhelper.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/page.cpp -o page.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/pager.cpp -o pager.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/selection.cpp -o selection.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:76: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] 48 | eNcbiCred_MbedTls = 0xC12CC114 | ^~~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:77: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiatomic.h: In function 'NCBI_SwapPointers': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiatomic.h:171:1: warning: no return statement in function returning non-void [-Wreturn-type] - 171 | } - | ^ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c: In function 'METACONN_Remove': @@ -6472,6 +6491,26 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c:92:9: note: in expansion of macro 'METACONN_LOG' 92 | METACONN_LOG(33, connector->next ? eLOG_Error : eLOG_Critical, | ^~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:77: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiatomic.h: In function 'NCBI_SwapPointers': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiatomic.h:171:1: warning: no return statement in function returning non-void [-Wreturn-type] + 171 | } + | ^ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/get_species_taxids.sh /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/get_species_taxids.sh /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/get_species_taxids.sh +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 48 | eNcbiCred_MbedTls = 0xC12CC114 + | ^~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbsmd.h:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_host_info.c:33: @@ -6481,18 +6520,145 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 48 | eNcbiCred_MbedTls = 0xC12CC114 - | ^~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/node.cpp -o node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/html.cpp -o html.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/htmlhelper.cpp -o htmlhelper.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/page.cpp -o page.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/pager.cpp -o pager.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/selection.cpp -o selection.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make[4] (Makefile.xregexp.lib): Nothing to be done for `all'. +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_util.c:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_util.c: In function 'CORE_SetLOGFILE_NAME_Ex': +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_util.c:153:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 153 | CORE_LOGF_ERRNO_X(1, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.cleanup-blastdb-volumes builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_DoLog': +cd serial/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=serial UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:530:9: note: in expansion of macro 'CORE_LOGF_X' + 530 | CORE_LOGF_X(112, level, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:247:5: note: in expansion of macro 'DO_CORE_LOG_X' + 247 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, data, size) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:199:5: note: in expansion of macro 'DO_CORE_LOG_DATA' + 199 | DO_CORE_LOG_DATA(NCBI_C_ERRCODE_X, subcode, level, data, size, \ + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:569:9: note: in expansion of macro 'CORE_DATAF_X' + 569 | CORE_DATAF_X(109, level, data, size, + | ^~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:601:9: note: in expansion of macro 'CORE_LOGF_X' + 601 | CORE_LOGF_X(113, level, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:609:9: note: in expansion of macro 'CORE_LOGF_X' + 609 | CORE_LOGF_X(1, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_InitAPI_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:902:32: warning: format '%p' expects argument of type 'void *', but argument 3 has type 'FSSLSetup' {aka 'const struct SOCKSSL_struct * (*)(void)'} [-Wformat=] + 902 | sprintf(buf, "%p()", s_SSLSetup); + | ~^ ~~~~~~~~~~ + | | | + | | FSSLSetup {aka const struct SOCKSSL_struct * (*)(void)} + | void * +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:906:13: note: in expansion of macro 'CORE_LOGF' + 906 | CORE_LOGF(eLOG_Critical, + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:914:13: note: in expansion of macro 'CORE_LOG' + 914 | CORE_LOG(eLOG_Critical, "Secure Socket Layer (SSL) has not" + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'x_ReInit': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] @@ -6537,14 +6703,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:311:21: note: in expansion of macro 'CONN_LOG' 311 | CONN_LOG(3, Close, | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6566,6 +6724,85 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:315:21: note: in expansion of macro 'CONN_LOG' 315 | CONN_LOG(3, ReInit, eLOG_Error, | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostname': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:179:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 179 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1069:13: note: in expansion of macro 'CORE_LOG_ERRNO_EXX' + 1069 | CORE_LOG_ERRNO_EXX(103, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1078:13: note: in expansion of macro 'CORE_LOGF_X' + 1078 | CORE_LOGF_X(104, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyname_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1259:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 1259 | CORE_LOGF_ERRNO_EXX(106, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_getlocalhostaddress': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1298:9: note: in expansion of macro 'CORE_LOGF_X' + 1298 | CORE_LOGF_X(9, reget == eDefault ? eLOG_Warning : eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyname': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1328:9: note: in expansion of macro 'CORE_LOGF_X' + 1328 | CORE_LOGF_X(155, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 's_Open': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -6588,6 +6825,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:394:9: note: in expansion of macro 'CONN_LOG' 394 | CONN_LOG(5, Open, eLOG_Error, "Failed to open connection"); | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyaddr_': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_CreateEx': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -6610,6 +6848,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:436:9: note: in expansion of macro 'CONN_LOG' 436 | CONN_LOG(2, Create, eLOG_Error, "NULL connector"); | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1460:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 1460 | CORE_LOGF_ERRNO_EXX(108, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyaddr': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_ReInit': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -6647,6 +6901,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1494:9: note: in expansion of macro 'CORE_LOGF_X' + 1494 | CORE_LOGF_X(10, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' 71 | CORE_LOGF_X(subcode, level, \ | ^~~~~~~~~~~ @@ -6660,6 +6929,7 @@ 458 | CONN_NOT_NULL(1, ReInit); | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_GetType': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'x_TryLowerSockFileno': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6693,6 +6963,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1628:13: note: in expansion of macro 'CORE_LOGF_X' + 1628 | CORE_LOGF_X(111, eLOG_Trace, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' 71 | CORE_LOGF_X(subcode, level, \ | ^~~~~~~~~~~ @@ -6702,6 +6987,105 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:466:5: note: in expansion of macro 'CONN_NOT_NULL_EX' 466 | CONN_NOT_NULL_EX(6, GetType, 0); | ^~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c: In function 'ConnNetInfo_Log': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:137:54: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 137 | LOG_Write(lg, code, subcode, level, THIS_MODULE, CORE_CURRENT_FUNCTION, \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:1728:9: note: in expansion of macro 'LOG_WRITE' + 1728 | LOG_WRITE(lg, NCBI_C_ERRCODE_X, 11, + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Select_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1753:21: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 1753 | CORE_LOGF_ERRNO_X(145, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1882:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 1882 | CORE_LOGF_ERRNO_EXX(5, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Poll_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2026:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 2026 | CORE_LOGF_ERRNO_X(146, eLOG_Critical, errno, + | ^~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.h:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c: In function 'URL_ConnectEx': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:1944:9: note: in expansion of macro 'CORE_LOG_X' + 1944 | CORE_LOG_X(2, eLOG_Critical, "[URL_Connect] Bad argument(s)"); + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:1981:9: note: in expansion of macro 'CORE_LOGF_X' + 1981 | CORE_LOGF_X(3, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Description': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -6767,7 +7151,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:487:5: note: in expansion of macro 'CONN_NOT_NULL_EX' 487 | CONN_NOT_NULL_EX(30, GetPosition, 0); | ^~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6868,6 +7251,82 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2004:9: note: in expansion of macro 'CORE_LOGF_X' + 2004 | CORE_LOGF_X(4, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2171:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 2171 | CORE_LOGF_ERRNO_EXX(147, ready ? eLOG_Warning : eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2055:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 2055 | CORE_LOGF_ERRNO_X(5, eLOG_Error, x_errno, + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2072:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 2072 | CORE_LOGF_ERRNO_X(6, eLOG_Error, x_errno, + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_IsConnected_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2119:9: note: in expansion of macro 'CORE_LOGF_X' + 2119 | CORE_LOGF_X(7, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' 71 | CORE_LOGF_X(subcode, level, \ | ^~~~~~~~~~~ @@ -7002,10 +7461,98 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:611:5: note: in expansion of macro 'CONN_NOT_NULL' 611 | CONN_NOT_NULL(13, Wait); | ^~~~~~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2747:13: note: in expansion of macro 'CORE_LOGF' + 2747 | CORE_LOGF(eLOG_Trace, + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2757:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 2757 | CORE_LOGF_ERRNO_EXX(6, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c: In function 'URL_Connect': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2795:25: note: in expansion of macro 'CORE_LOGF' + 2795 | CORE_LOGF(eLOG_Trace, + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2152:9: note: in expansion of macro 'CORE_LOG_X' + 2152 | CORE_LOG_X(9, eLOG_Error, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2194:17: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 2194 | CORE_LOGF_ERRNO_X(8, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Recv': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2951:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 2951 | CORE_LOGF_ERRNO_EXX(7, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7119,7 +7666,23 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:762:5: note: in expansion of macro 'CONN_NOT_NULL' 762 | CONN_NOT_NULL(18, Write); | ^~~~~~~~~~~~~ -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[6]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Read_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3136:17: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 3136 | CORE_LOGF_ERRNO_X(8, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Pushback': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -7145,9 +7708,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:797:5: note: in expansion of macro 'CONN_NOT_NULL' 797 | CONN_NOT_NULL(19, Pushback); | ^~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_DoLog': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7160,9 +7720,19 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:530:9: note: in expansion of macro 'CORE_LOGF_X' - 530 | CORE_LOGF_X(112, level, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' + 71 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' + 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' + 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:797:5: note: in expansion of macro 'CONN_NOT_NULL' + 797 | CONN_NOT_NULL(19, Pushback); + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Flush': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7178,31 +7748,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' 71 | CORE_LOGF_X(subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' - 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:105:11: note: in expansion of macro 'CONN_LOG_EX' + 105 | CONN_LOG_EX(subcode, func_name, eLOG_Error, \ | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:797:5: note: in expansion of macro 'CONN_NOT_NULL' - 797 | CONN_NOT_NULL(19, Pushback); - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:247:5: note: in expansion of macro 'DO_CORE_LOG_X' - 247 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, data, size) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:817:5: note: in expansion of macro 'CONN_NOT_NULL' + 817 | CONN_NOT_NULL(20, Flush); | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:199:5: note: in expansion of macro 'DO_CORE_LOG_DATA' - 199 | DO_CORE_LOG_DATA(NCBI_C_ERRCODE_X, subcode, level, data, size, \ - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:569:9: note: in expansion of macro 'CORE_DATAF_X' - 569 | CORE_DATAF_X(109, level, data, size, - | ^~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Flush': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7218,8 +7772,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' 71 | CORE_LOGF_X(subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:105:11: note: in expansion of macro 'CONN_LOG_EX' - 105 | CONN_LOG_EX(subcode, func_name, eLOG_Error, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' + 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) @@ -7239,9 +7793,42 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:601:9: note: in expansion of macro 'CORE_LOGF_X' - 601 | CORE_LOGF_X(113, level, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' + 71 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:82:39: note: in expansion of macro 'CONN_LOG_EX' + 82 | #define CONN_LOG(s_c, f_n, lvl, msg) CONN_LOG_EX(s_c, f_n, lvl, msg, status) + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:832:9: note: in expansion of macro 'CONN_LOG' + 832 | CONN_LOG(21, Flush, status == eIO_Timeout ? eLOG_Trace : eLOG_Warning, + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/tables/raw_scoremat.c -o raw_scoremat.o +/bin/rm -f libtables.so .libtables.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libtables.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC raw_scoremat.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libtables.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libtables.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libtables.so +/bin/ln -f .tables.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.tables.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Send': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3487:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 3487 | CORE_LOGF_ERRNO_EXX(11, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c: In function 'x_ServiceName': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7254,8 +7841,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:609:9: note: in expansion of macro 'CORE_LOGF_X' - 609 | CORE_LOGF_X(1, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:107:9: note: in expansion of macro 'CORE_LOGF_X' + 107 | CORE_LOGF_X(7, eLOG_Error, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -7269,18 +7856,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' - 71 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' - 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' - 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:817:5: note: in expansion of macro 'CONN_NOT_NULL' - 817 | CONN_NOT_NULL(20, Flush); - | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:140:13: note: in expansion of macro 'CORE_LOGF_X' + 140 | CORE_LOGF_X(8, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c: In function 'x_Open': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7293,19 +7872,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' - 71 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:82:39: note: in expansion of macro 'CONN_LOG_EX' - 82 | #define CONN_LOG(s_c, f_n, lvl, msg) CONN_LOG_EX(s_c, f_n, lvl, msg, status) - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:832:9: note: in expansion of macro 'CONN_LOG' - 832 | CONN_LOG(21, Flush, status == eIO_Timeout ? eLOG_Trace : eLOG_Warning, - | ^~~~~~~~ -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/get_species_taxids.sh /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/get_species_taxids.sh /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/get_species_taxids.sh -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:380:13: note: in expansion of macro 'CORE_LOGF_X' + 380 | CORE_LOGF_X(1, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 's_CONN_Read': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -7392,74 +7961,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:971:5: note: in expansion of macro 'CONN_NOT_NULL' 971 | CONN_NOT_NULL(24, Read); | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_InitAPI_': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:902:32: warning: format '%p' expects argument of type 'void *', but argument 3 has type 'FSSLSetup' {aka 'const struct SOCKSSL_struct * (*)(void)'} [-Wformat=] - 902 | sprintf(buf, "%p()", s_SSLSetup); - | ~^ ~~~~~~~~~~ - | | | - | | FSSLSetup {aka const struct SOCKSSL_struct * (*)(void)} - | void * -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:906:13: note: in expansion of macro 'CORE_LOGF' - 906 | CORE_LOGF(eLOG_Critical, - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:914:13: note: in expansion of macro 'CORE_LOG' - 914 | CORE_LOG(eLOG_Critical, "Secure Socket Layer (SSL) has not" - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostname': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:179:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 179 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1069:13: note: in expansion of macro 'CORE_LOG_ERRNO_EXX' - 1069 | CORE_LOG_ERRNO_EXX(103, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1078:13: note: in expansion of macro 'CORE_LOGF_X' - 1078 | CORE_LOGF_X(104, eLOG_Error, - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7484,6 +7985,29 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:971:5: note: in expansion of macro 'CONN_NOT_NULL' 971 | CONN_NOT_NULL(24, Read); | ^~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_WriteData': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3575:31: warning: ordered comparison of pointer with integer zero [-Wpedantic] + 3575 | n_written > 0 ? " [encrypt]" : 0); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_WritePending': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | make[5]: warning: -j12 forced in submake: resetting jobserver mode. + ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3639:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 3639 | CORE_LOGF_ERRNO_EXX(12, sock->log != eOff + | ^~~~~~~~~~~~~~~~~~~ +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_ReadLine': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -7533,9 +8057,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:1020:5: note: in expansion of macro 'CONN_NOT_NULL' 1020 | CONN_NOT_NULL(25, ReadLine); | ^~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c: In function 'ConnNetInfo_Log': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7554,49 +8075,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:1067:17: note: in expansion of macro 'CONN_LOG_EX' 1067 | CONN_LOG_EX(35, ReadLine, eLOG_Critical, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:137:54: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 137 | LOG_Write(lg, code, subcode, level, THIS_MODULE, CORE_CURRENT_FUNCTION, \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:1728:9: note: in expansion of macro 'LOG_WRITE' - 1728 | LOG_WRITE(lg, NCBI_C_ERRCODE_X, 11, - | ^~~~~~~~~ -/usr/bin/make[4] (Makefile.xregexp.lib): Nothing to be done for `all'. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyname_': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1259:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 1259 | CORE_LOGF_ERRNO_EXX(106, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_getlocalhostaddress': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1298:9: note: in expansion of macro 'CORE_LOGF_X' - 1298 | CORE_LOGF_X(9, reget == eDefault ? eLOG_Warning : eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyname': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Status': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7609,26 +8088,19 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1328:9: note: in expansion of macro 'CORE_LOGF_X' - 1328 | CORE_LOGF_X(155, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyaddr_': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' + 71 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:105:11: note: in expansion of macro 'CONN_LOG_EX' + 105 | CONN_LOG_EX(subcode, func_name, eLOG_Error, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' + 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:1086:5: note: in expansion of macro 'CONN_NOT_NULL' + 1086 | CONN_NOT_NULL(26, Status); | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1460:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 1460 | CORE_LOGF_ERRNO_EXX(108, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_gethostbyaddr': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Shutdown': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7641,10 +8113,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1494:9: note: in expansion of macro 'CORE_LOGF_X' - 1494 | CORE_LOGF_X(10, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Status': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3813:21: note: in expansion of macro 'CORE_LOGF_X' + 3813 | CORE_LOGF_X(13, !tv || (tv->tv_sec | tv->tv_usec) + | ^~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7660,8 +8132,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' 71 | CORE_LOGF_X(subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:105:11: note: in expansion of macro 'CONN_LOG_EX' - 105 | CONN_LOG_EX(subcode, func_name, eLOG_Error, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' + 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) @@ -7675,26 +8147,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' - 71 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:112:11: note: in expansion of macro 'CONN_LOG_EX' - 112 | CONN_LOG_EX(subcode, func_name, eLOG_Critical, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:118:34: note: in expansion of macro 'CONN_NOT_NULL_EX' - 118 | #define CONN_NOT_NULL(s_c, f_n) CONN_NOT_NULL_EX(s_c, f_n, eIO_InvalidArg) - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:1086:5: note: in expansion of macro 'CONN_NOT_NULL' - 1086 | CONN_NOT_NULL(26, Status); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3849:25: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 3849 | CORE_LOGF_ERRNO_EXX(127, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Close': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c: In function 'URL_ConnectEx': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7725,15 +8187,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:1944:9: note: in expansion of macro 'CORE_LOG_X' - 1944 | CORE_LOG_X(2, eLOG_Critical, "[URL_Connect] Bad argument(s)"); - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3900:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 3900 | CORE_LOGF_ERRNO_EXX(16, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7758,6 +8220,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:1132:5: note: in expansion of macro 'CONN_NOT_NULL' 1132 | CONN_NOT_NULL(27, Close); | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Close_': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_SetCallback': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -7783,23 +8246,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:1152:5: note: in expansion of macro 'CONN_NOT_NULL' 1152 | CONN_NOT_NULL(28, SetCallback); | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'x_TryLowerSockFileno': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1628:13: note: in expansion of macro 'CORE_LOGF_X' - 1628 | CORE_LOGF_X(111, eLOG_Trace, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Select_': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7809,21 +8255,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1753:21: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 1753 | CORE_LOGF_ERRNO_X(145, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.h:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3981:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 3981 | CORE_LOGF_ERRNO_EXX(17, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7848,6 +8285,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:1152:5: note: in expansion of macro 'CONN_NOT_NULL' 1152 | CONN_NOT_NULL(28, SetCallback); | ^~~~~~~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +cd util/compress/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=compress UNIX_PROJ="" sources= configurables=configurables.null /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7903,24 +8344,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:1981:9: note: in expansion of macro 'CORE_LOGF_X' - 1981 | CORE_LOGF_X(3, eLOG_Warning, - | ^~~~~~~~~~~ -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:71:7: note: in expansion of macro 'CORE_LOGF_X' 71 | CORE_LOGF_X(subcode, level, \ | ^~~~~~~~~~~ @@ -7939,15 +8362,79 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3997:21: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 3997 | CORE_LOGF_ERRNO_EXX(18, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4059:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4059 | CORE_LOGF_ERRNO_EXX(19, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4099:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4099 | CORE_LOGF_ERRNO_EXX(21, abort == 1 ? eLOG_Warning : eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Connect_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2004:9: note: in expansion of macro 'CORE_LOGF_X' - 2004 | CORE_LOGF_X(4, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4203:13: note: in expansion of macro 'CORE_LOGF_X' + 4203 | CORE_LOGF_X(142, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4228:13: note: in expansion of macro 'CORE_LOGF_X' + 4228 | CORE_LOGF_X(22, eLOG_Error, + | ^~~~~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial TMPL=serial -w -j12 --jobserver-auth=7,8 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7957,12 +8444,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2055:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 2055 | CORE_LOGF_ERRNO_X(5, eLOG_Error, x_errno, - | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4254:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4254 | CORE_LOGF_ERRNO_EXX(23, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7972,12 +8459,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2072:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 2072 | CORE_LOGF_ERRNO_X(6, eLOG_Error, x_errno, - | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4316:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4316 | CORE_LOGF_ERRNO_EXX(151, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7990,10 +8477,63 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:1882:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 1882 | CORE_LOGF_ERRNO_EXX(5, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4327:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4327 | CORE_LOGF_ERRNO_EXX(135, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4372:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4372 | CORE_LOGF_ERRNO_EXX(131, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4420:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4420 | CORE_LOGF_ERRNO_EXX(25, sock->log != eOff | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Poll_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4462:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4462 | CORE_LOGF_ERRNO_EXX(26, sock->log != eOff + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Create': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8006,10 +8546,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2026:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 2026 | CORE_LOGF_ERRNO_X(146, eLOG_Critical, errno, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4570:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 4570 | CORE_LOGF_ERRNO_X(27, eLOG_Error, errno, | ^~~~~~~~~~~~~~~~~ -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_CreateOnTop': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8022,10 +8562,24 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2119:9: note: in expansion of macro 'CORE_LOGF_X' - 2119 | CORE_LOGF_X(7, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4632:9: note: in expansion of macro 'CORE_LOGF_X' + 4632 | CORE_LOGF_X(47, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c: In function 'URL_Connect': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4690:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4690 | CORE_LOGF_ERRNO_EXX(148, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8035,12 +8589,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2152:9: note: in expansion of macro 'CORE_LOG_X' - 2152 | CORE_LOG_X(9, eLOG_Error, - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4734:17: note: in expansion of macro 'CORE_LOGF_X' + 4734 | CORE_LOGF_X(48, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4783:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4783 | CORE_LOGF_ERRNO_EXX(50, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8053,13 +8622,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connutil.c:2194:17: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 2194 | CORE_LOGF_ERRNO_X(8, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -cd serial/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=serial UNIX_PROJ="" sources= configurables=configurables.null +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4800:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 4800 | CORE_LOGF_ERRNO_X(49, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8072,19 +8638,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2171:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 2171 | CORE_LOGF_ERRNO_EXX(147, ready ? eLOG_Warning : eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4887:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4887 | CORE_LOGF_ERRNO_EXX(132, eLOG_Error, | ^~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/Makefile.cleanup-blastdb-volumes builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast -w -j12 --jobserver-auth=9,10 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_IsConnected_': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8097,9 +8653,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' 159 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2747:13: note: in expansion of macro 'CORE_LOGF' - 2747 | CORE_LOGF(eLOG_Trace, - | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4909:17: note: in expansion of macro 'CORE_LOGF' + 4909 | CORE_LOGF(eLOG_Trace, + | ^~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8112,8 +8668,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2757:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 2757 | CORE_LOGF_ERRNO_EXX(6, eLOG_Trace, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4938:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4938 | CORE_LOGF_ERRNO_EXX(153, eLOG_Warning, | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -8121,17 +8677,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2795:25: note: in expansion of macro 'CORE_LOGF' - 2795 | CORE_LOGF(eLOG_Trace, - | ^~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Recv': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4949:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4949 | CORE_LOGF_ERRNO_EXX(138, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8144,14 +8698,32 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2951:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 2951 | CORE_LOGF_ERRNO_EXX(7, eLOG_Trace, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4972:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4972 | CORE_LOGF_ERRNO_EXX(124, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4990:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 4990 | CORE_LOGF_ERRNO_EXX(43, eLOG_Warning, | ^~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c: In function 'x_ServiceName': -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_CreateListening': +-D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_server_info.c -o ncbi_server_info.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_host_info.c -o ncbi_host_info.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c -o ncbi_service.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c -o ncbi_sendmail.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_base64.c -o ncbi_base64.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c -o ncbi_heapmgr.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reprodIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c: In function 's_SendRcpt': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] @@ -8290,9 +8862,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:107:9: note: in expansion of macro 'CORE_LOGF_X' - 107 | CORE_LOGF_X(7, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' + 364 | CORE_LOGF_X(subcode, eLOG_Error, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:508:9: note: in expansion of macro 'SENDMAIL_RETURN2' + 508 | SENDMAIL_RETURN2(9, "Protocol error in connection init", buffer); + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8305,46 +8880,39 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' - 364 | CORE_LOGF_X(subcode, eLOG_Error, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:508:9: note: in expansion of macro 'SENDMAIL_RETURN2' - 508 | SENDMAIL_RETURN2(9, "Protocol error in connection init", buffer); - | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5064:13: note: in expansion of macro 'CORE_LOGF_X' + 5064 | CORE_LOGF_X(144, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:140:13: note: in expansion of macro 'CORE_LOGF_X' - 140 | CORE_LOGF_X(8, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Read_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5106:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5106 | CORE_LOGF_ERRNO_EXX(34, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' - 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:513:9: note: in expansion of macro 'SENDMAIL_RETURN' - 513 | SENDMAIL_RETURN(10, "Unable to get local host name"); - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5152:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5152 | CORE_LOGF_ERRNO_EXX(35, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8354,12 +8922,32 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3136:17: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 3136 | CORE_LOGF_ERRNO_X(8, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5207:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5207 | CORE_LOGF_ERRNO_EXX(36, error != SOCK_EADDRINUSE + | ^~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | make[5]: warning: -j12 forced in submake: resetting jobserver mode. + ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' + 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:513:9: note: in expansion of macro 'SENDMAIL_RETURN' + 513 | SENDMAIL_RETURN(10, "Unable to get local host name"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8414,22 +9002,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:526:9: note: in expansion of macro 'SENDMAIL_RETURN' 526 | SENDMAIL_RETURN(13, "Write error in MAIL command"); | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c: In function 'x_Open': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:380:13: note: in expansion of macro 'CORE_LOGF_X' - 380 | CORE_LOGF_X(1, eLOG_Error, - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8484,6 +9056,45 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:552:9: note: in expansion of macro 'SENDMAIL_RETURN2' 552 | SENDMAIL_RETURN2(16, "Protocol error in DATA command", buffer); | ^~~~~~~~~~~~~~~~ +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5228:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5228 | CORE_LOGF_ERRNO_EXX(150, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5298:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5298 | CORE_LOGF_ERRNO_EXX(37, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:115: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Create': +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/cleanup-blastdb-volumes.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/cleanup-blastdb-volumes.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/cleanup-blastdb-volumes.py +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8607,26 +9218,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:627:9: note: in expansion of macro 'SENDMAIL_RETURN' 627 | SENDMAIL_RETURN(20, "Write error in sending mailer information"); | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Send': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3487:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 3487 | CORE_LOGF_ERRNO_EXX(11, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_WriteData': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3575:31: warning: ordered comparison of pointer with integer zero [-Wpedantic] - 3575 | n_written > 0 ? " [encrypt]" : 0); - | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8645,6 +9236,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:655:17: note: in expansion of macro 'SENDMAIL_RETURN' 655 | SENDMAIL_RETURN(21, "Write error while sending custom header"); | ^~~~~~~~~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8657,12 +9250,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' - 364 | CORE_LOGF_X(subcode, eLOG_Error, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5365:9: note: in expansion of macro 'CORE_LOGF_X' + 5365 | CORE_LOGF_X(115, eLOG_Note, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:664:13: note: in expansion of macro 'SENDMAIL_RETURN2' - 664 | SENDMAIL_RETURN2(22, error, buffer); - | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Accept': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8675,30 +9266,24 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' - 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5402:9: note: in expansion of macro 'CORE_LOGF_X' + 5402 | CORE_LOGF_X(39, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:667:13: note: in expansion of macro 'SENDMAIL_RETURN' - 667 | SENDMAIL_RETURN(23, "Write error in finalizing custom header"); - | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' - 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:676:17: note: in expansion of macro 'SENDMAIL_RETURN' - 676 | SENDMAIL_RETURN(24, "Write error in message body delimiter"); - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5458:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5458 | CORE_LOGF_ERRNO_EXX(40, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8711,12 +9296,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' - 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:273:9: note: in expansion of macro 'CORE_LOGF_X' + 273 | CORE_LOGF_X(1, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:702:17: note: in expansion of macro 'SENDMAIL_RETURN' - 702 | SENDMAIL_RETURN(25, "Write error while sending message body"); - | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8729,12 +9311,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' - 364 | CORE_LOGF_X(subcode, eLOG_Error, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:711:13: note: in expansion of macro 'SENDMAIL_RETURN2' - 711 | SENDMAIL_RETURN2(26, error, buffer); - | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:295:13: note: in expansion of macro 'CORE_LOGF_X' + 295 | CORE_LOGF_X(2, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_AttachFast': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8747,12 +9327,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' - 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:319:9: note: in expansion of macro 'CORE_LOGF_X' + 319 | CORE_LOGF_X(3, eLOG_Warning, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:715:13: note: in expansion of macro 'SENDMAIL_RETURN' - 715 | SENDMAIL_RETURN(27, "Write error while finalizing message body"); - | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8765,12 +9342,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' - 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:329:9: note: in expansion of macro 'CORE_LOGF_X' + 329 | CORE_LOGF_X(4, eLOG_Warning, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:718:9: note: in expansion of macro 'SENDMAIL_RETURN' - 718 | SENDMAIL_RETURN(28, "Write error while finalizing message"); - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Attach': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8783,12 +9358,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' - 364 | CORE_LOGF_X(subcode, eLOG_Error, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:723:9: note: in expansion of macro 'SENDMAIL_RETURN2' - 723 | SENDMAIL_RETURN2(29, "Protocol error in sending message", buffer); - | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:360:17: note: in expansion of macro 'CORE_LOGF_X' + 360 | CORE_LOGF_X(34, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 's_HEAP_Find': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8801,13 +9374,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' - 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:451:9: note: in expansion of macro 'CORE_LOGF_X' + 451 | CORE_LOGF_X(8, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:726:9: note: in expansion of macro 'SENDMAIL_RETURN' - 726 | SENDMAIL_RETURN(30, "Write error in QUIT command"); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 's_HEAP_Take': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:636:12: warning: taking address of packed member of 'struct ' may result in an unaligned pointer value [-Waddress-of-packed-member] + 636 | return &b->head; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Alloc': +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/hookdata.cpp -o hookdata.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/hookdatakey.cpp -o hookdatakey.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeinfo.cpp -o typeinfo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objectinfo.cpp -o objectinfo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objectiter.cpp -o objectiter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objectio.cpp -o objectio.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEF/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' @@ -8822,26 +9404,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' 364 | CORE_LOGF_X(subcode, eLOG_Error, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:728:9: note: in expansion of macro 'SENDMAIL_RETURN2' - 728 | SENDMAIL_RETURN2(31, "Protocol error in QUIT command", buffer); - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_WritePending': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3639:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 3639 | CORE_LOGF_ERRNO_EXX(12, sock->log != eOff - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Shutdown': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:664:13: note: in expansion of macro 'SENDMAIL_RETURN2' + 664 | SENDMAIL_RETURN2(22, error, buffer); + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8854,105 +9419,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3813:21: note: in expansion of macro 'CORE_LOGF_X' - 3813 | CORE_LOGF_X(13, !tv || (tv->tv_sec | tv->tv_usec) - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3849:25: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 3849 | CORE_LOGF_ERRNO_EXX(127, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -make[6]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3900:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 3900 | CORE_LOGF_ERRNO_EXX(16, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Close_': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3981:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 3981 | CORE_LOGF_ERRNO_EXX(17, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3997:21: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 3997 | CORE_LOGF_ERRNO_EXX(18, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4059:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4059 | CORE_LOGF_ERRNO_EXX(19, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4099:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4099 | CORE_LOGF_ERRNO_EXX(21, abort == 1 ? eLOG_Warning : eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Connect_': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' + 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:667:13: note: in expansion of macro 'SENDMAIL_RETURN' + 667 | SENDMAIL_RETURN(23, "Write error in finalizing custom header"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8965,9 +9437,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4203:13: note: in expansion of macro 'CORE_LOGF_X' - 4203 | CORE_LOGF_X(142, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' + 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:676:17: note: in expansion of macro 'SENDMAIL_RETURN' + 676 | SENDMAIL_RETURN(24, "Write error in message body delimiter"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8980,126 +9455,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4228:13: note: in expansion of macro 'CORE_LOGF_X' - 4228 | CORE_LOGF_X(22, eLOG_Error, - | ^~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4254:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4254 | CORE_LOGF_ERRNO_EXX(23, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4316:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4316 | CORE_LOGF_ERRNO_EXX(151, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4327:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4327 | CORE_LOGF_ERRNO_EXX(135, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4372:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4372 | CORE_LOGF_ERRNO_EXX(131, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4420:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4420 | CORE_LOGF_ERRNO_EXX(25, sock->log != eOff - | ^~~~~~~~~~~~~~~~~~~ --D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_server_info.c -o ncbi_server_info.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_host_info.c -o ncbi_host_info.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c -o ncbi_service.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c -o ncbi_sendmail.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_base64.c -o ncbi_base64.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c -o ncbi_heapmgr.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reprod/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial TMPL=serial -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4462:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4462 | CORE_LOGF_ERRNO_EXX(26, sock->log != eOff - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Create': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4570:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 4570 | CORE_LOGF_ERRNO_X(27, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_CreateOnTop': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' + 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:702:17: note: in expansion of macro 'SENDMAIL_RETURN' + 702 | SENDMAIL_RETURN(25, "Write error while sending message body"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9112,24 +9473,30 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4632:9: note: in expansion of macro 'CORE_LOGF_X' - 4632 | CORE_LOGF_X(47, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' + 364 | CORE_LOGF_X(subcode, eLOG_Error, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:711:13: note: in expansion of macro 'SENDMAIL_RETURN2' + 711 | SENDMAIL_RETURN2(26, error, buffer); + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4690:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4690 | CORE_LOGF_ERRNO_EXX(148, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' + 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:715:13: note: in expansion of macro 'SENDMAIL_RETURN' + 715 | SENDMAIL_RETURN(27, "Write error while finalizing message body"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9142,9 +9509,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4734:17: note: in expansion of macro 'CORE_LOGF_X' - 4734 | CORE_LOGF_X(48, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' + 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:718:9: note: in expansion of macro 'SENDMAIL_RETURN' + 718 | SENDMAIL_RETURN(28, "Write error while finalizing message"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9157,8 +9527,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4783:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4783 | CORE_LOGF_ERRNO_EXX(50, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5517:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5517 | CORE_LOGF_ERRNO_EXX(41, eLOG_Error, | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -9166,33 +9536,18 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4800:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 4800 | CORE_LOGF_ERRNO_X(49, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:115: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Create': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:273:9: note: in expansion of macro 'CORE_LOGF_X' - 273 | CORE_LOGF_X(1, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' + 364 | CORE_LOGF_X(subcode, eLOG_Error, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:723:9: note: in expansion of macro 'SENDMAIL_RETURN2' + 723 | SENDMAIL_RETURN2(29, "Protocol error in sending message", buffer); + | ^~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9202,13 +9557,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:295:13: note: in expansion of macro 'CORE_LOGF_X' - 295 | CORE_LOGF_X(2, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_AttachFast': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:649:9: note: in expansion of macro 'CORE_LOG_X' + 649 | CORE_LOG_X(6, eLOG_Warning, "Heap Alloc: NULL heap"); + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9221,8 +9575,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:319:9: note: in expansion of macro 'CORE_LOGF_X' - 319 | CORE_LOGF_X(3, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:655:9: note: in expansion of macro 'CORE_LOGF_X' + 655 | CORE_LOGF_X(7, eLOG_Error, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -9230,30 +9584,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4887:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4887 | CORE_LOGF_ERRNO_EXX(132, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4909:17: note: in expansion of macro 'CORE_LOGF' - 4909 | CORE_LOGF(eLOG_Trace, - | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:702:13: note: in expansion of macro 'CORE_LOGF_X' + 702 | CORE_LOGF_X(9, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Free': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9263,13 +9603,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:329:9: note: in expansion of macro 'CORE_LOGF_X' - 329 | CORE_LOGF_X(4, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Attach': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:826:9: note: in expansion of macro 'CORE_LOG_X' + 826 | CORE_LOG_X(10, eLOG_Warning, "Heap Free: NULL heap"); + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9282,10 +9621,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:360:17: note: in expansion of macro 'CORE_LOGF_X' - 360 | CORE_LOGF_X(34, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 's_HEAP_Find': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:832:9: note: in expansion of macro 'CORE_LOGF_X' + 832 | CORE_LOGF_X(11, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9298,14 +9636,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:451:9: note: in expansion of macro 'CORE_LOGF_X' - 451 | CORE_LOGF_X(8, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 's_HEAP_Take': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:636:12: warning: taking address of packed member of 'struct ' may result in an unaligned pointer value [-Waddress-of-packed-member] - 636 | return &b->head; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Alloc': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:845:13: note: in expansion of macro 'CORE_LOGF_X' + 845 | CORE_LOGF_X(13, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9315,12 +9648,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:649:9: note: in expansion of macro 'CORE_LOG_X' - 649 | CORE_LOG_X(6, eLOG_Warning, "Heap Alloc: NULL heap"); - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:853:17: note: in expansion of macro 'CORE_LOGF_X' + 853 | CORE_LOGF_X(12, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9333,9 +9666,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:655:9: note: in expansion of macro 'CORE_LOGF_X' - 655 | CORE_LOGF_X(7, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:865:5: note: in expansion of macro 'CORE_LOGF_X' + 865 | CORE_LOGF_X(14, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9348,8 +9681,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4938:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4938 | CORE_LOGF_ERRNO_EXX(153, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5574:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5574 | CORE_LOGF_ERRNO_EXX(42, eLOG_Warning, | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -9363,8 +9696,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4949:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4949 | CORE_LOGF_ERRNO_EXX(138, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5585:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5585 | CORE_LOGF_ERRNO_EXX(152, eLOG_Warning, | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -9372,50 +9705,18 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4972:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4972 | CORE_LOGF_ERRNO_EXX(124, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/cleanup-blastdb-volumes.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/cleanup-blastdb-volumes.py /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/cleanup-blastdb-volumes.py -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:702:13: note: in expansion of macro 'CORE_LOGF_X' - 702 | CORE_LOGF_X(9, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Free': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:826:9: note: in expansion of macro 'CORE_LOG_X' - 826 | CORE_LOG_X(10, eLOG_Warning, "Heap Free: NULL heap"); - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:347:9: note: in expansion of macro 'CORE_LOGF_X' + 347 | CORE_LOGF_X(subcode, eLOG_Error, ("[SendMail] %s", reason)); \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:726:9: note: in expansion of macro 'SENDMAIL_RETURN' + 726 | SENDMAIL_RETURN(30, "Write error in QUIT command"); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9428,39 +9729,53 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:832:9: note: in expansion of macro 'CORE_LOGF_X' - 832 | CORE_LOGF_X(11, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:364:9: note: in expansion of macro 'CORE_LOGF_X' + 364 | CORE_LOGF_X(subcode, eLOG_Error, \ | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_sendmail.c:728:9: note: in expansion of macro 'SENDMAIL_RETURN2' + 728 | SENDMAIL_RETURN2(31, "Protocol error in QUIT command", buffer); + | ^~~~~~~~~~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api TMPL=compress -w -j12 --jobserver-auth=7,8 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:845:13: note: in expansion of macro 'CORE_LOGF_X' - 845 | CORE_LOGF_X(13, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5596:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5596 | CORE_LOGF_ERRNO_EXX(137, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.c:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:853:17: note: in expansion of macro 'CORE_LOGF_X' - 853 | CORE_LOGF_X(12, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5616:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5616 | CORE_LOGF_ERRNO_EXX(128, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_CloseListening': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9473,9 +9788,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:865:5: note: in expansion of macro 'CORE_LOGF_X' - 865 | CORE_LOGF_X(14, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5668:9: note: in expansion of macro 'CORE_LOGF_X' + 5668 | CORE_LOGF_X(44, eLOG_Note, + | ^~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +cd cgi/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=cgi UNIX_PROJ="" sources= configurables=configurables.null /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_FreeFast': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -9507,16 +9824,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:883:9: note: in expansion of macro 'CORE_LOGF_X' 883 | CORE_LOGF_X(16, eLOG_Error, | ^~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.c:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9553,21 +9860,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:4990:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4990 | CORE_LOGF_ERRNO_EXX(43, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ @@ -9593,7 +9885,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:942:9: note: in expansion of macro 'CORE_LOGF_X' 942 | CORE_LOGF_X(30, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_CreateListening': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9615,15 +9906,19 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5064:13: note: in expansion of macro 'CORE_LOGF_X' - 5064 | CORE_LOGF_X(144, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5694:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5694 | CORE_LOGF_ERRNO_EXX(45, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_RecvMsg': +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9727,17 +10022,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:1158:17: note: in expansion of macro 'CORE_LOGF_X' - 1158 | CORE_LOGF_X(20, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5780:17: note: in expansion of macro 'CORE_LOGF_X' + 5780 | CORE_LOGF_X(20, eLOG_Error, | ^~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/tables/raw_scoremat.c -o raw_scoremat.o -/bin/rm -f libtables.so .libtables.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libtables.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC raw_scoremat.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libtables.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libtables.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libtables.so -/bin/ln -f .tables.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.tables.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9750,25 +10037,25 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5106:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5106 | CORE_LOGF_ERRNO_EXX(34, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5829:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5829 | CORE_LOGF_ERRNO_EXX(94, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_SendMsg': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5152:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5152 | CORE_LOGF_ERRNO_EXX(35, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:1158:17: note: in expansion of macro 'CORE_LOGF_X' + 1158 | CORE_LOGF_X(20, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9840,38 +10127,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:1246:12: warning: taking address of packed member of 'struct ' may result in an unaligned pointer value [-Waddress-of-packed-member] 1246 | return &n->head; | ^~~~~~~~ -cd util/compress/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=compress UNIX_PROJ="" sources= configurables=configurables.null -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Destroy': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:1325:9: note: in expansion of macro 'CORE_LOGF_X' - 1325 | CORE_LOGF_X(33, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5207:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5207 | CORE_LOGF_ERRNO_EXX(36, error != SOCK_EADDRINUSE - | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9881,27 +10136,28 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5228:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5228 | CORE_LOGF_ERRNO_EXX(150, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5864:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 5864 | CORE_LOGF_ERRNO_X(154, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5298:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5298 | CORE_LOGF_ERRNO_EXX(37, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5881:9: note: in expansion of macro 'CORE_LOGF_X' + 5881 | CORE_LOGF_X(88, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c: In function 'HEAP_Destroy': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9914,17 +10170,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5365:9: note: in expansion of macro 'CORE_LOGF_X' - 5365 | CORE_LOGF_X(115, eLOG_Note, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_heapmgr.c:1325:9: note: in expansion of macro 'CORE_LOGF_X' + 1325 | CORE_LOGF_X(33, eLOG_Error, | ^~~~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -cd cgi/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=cgi UNIX_PROJ="" sources= configurables=configurables.null -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c: In function 's_VT_Open': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9937,10 +10188,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c:172:13: note: in expansion of macro 'CORE_LOGF_X' - 172 | CORE_LOGF_X(33, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Accept': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5890:9: note: in expansion of macro 'CORE_LOGF_X' + 5890 | CORE_LOGF_X(89, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9953,9 +10203,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5402:9: note: in expansion of macro 'CORE_LOGF_X' - 5402 | CORE_LOGF_X(39, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5940:17: note: in expansion of macro 'CORE_LOGF_X' + 5940 | CORE_LOGF_X(90, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9968,19 +10218,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5458:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5458 | CORE_LOGF_ERRNO_EXX(40, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/hookdata.cpp -o hookdata.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/hookdatakey.cpp -o hookdatakey.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeinfo.cpp -o typeinfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objectinfo.cpp -o objectinfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objectiter.cpp -o objectiter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objectio.cpp -o objectio.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEF/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5986:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5986 | CORE_LOGF_ERRNO_EXX(91, eLOG_Trace, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'TRIGGER_Create': +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' @@ -9989,12 +10235,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5517:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5517 | CORE_LOGF_ERRNO_EXX(41, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6031:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 6031 | CORE_LOGF_ERRNO_X(28, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10004,15 +10250,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5574:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5574 | CORE_LOGF_ERRNO_EXX(42, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6041:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 6041 | CORE_LOGF_ERRNO_X(143, eLOG_Warning, errno, + | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10022,12 +10265,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5585:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5585 | CORE_LOGF_ERRNO_EXX(152, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6053:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 6053 | CORE_LOGF_ERRNO_X(29, eLOG_Error, errno, + | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10037,31 +10280,28 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5596:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5596 | CORE_LOGF_ERRNO_EXX(137, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6063:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 6063 | CORE_LOGF_ERRNO_X(30, eLOG_Warning, errno, + | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5616:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5616 | CORE_LOGF_ERRNO_EXX(128, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_CloseListening': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6082:13: note: in expansion of macro 'CORE_LOGF_X' + 6082 | CORE_LOGF_X(116, eLOG_Note, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'TRIGGER_Close': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10074,26 +10314,30 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5668:9: note: in expansion of macro 'CORE_LOGF_X' - 5668 | CORE_LOGF_X(44, eLOG_Note, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6136:9: note: in expansion of macro 'CORE_LOGF_X' + 6136 | CORE_LOGF_X(117, eLOG_Note, | ^~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +/usr/bin/make[4] (Makefile.blast_app_util.lib): Nothing to be done for `export-headers'. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'LSOCK_GetOSHandleEx': +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5694:17: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5694 | CORE_LOGF_ERRNO_EXX(45, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/usr/bin/make[4] (Makefile.blast_app_util.lib): Nothing to be done for `export-headers'. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_RecvMsg': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6360:9: note: in expansion of macro 'CORE_LOGF_X' + 6360 | CORE_LOGF_X(46, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Reconnect': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10106,47 +10350,51 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5780:17: note: in expansion of macro 'CORE_LOGF_X' - 5780 | CORE_LOGF_X(20, eLOG_Error, - | ^~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6528:9: note: in expansion of macro 'CORE_LOGF_X' + 6528 | CORE_LOGF_X(52, eLOG_Error, + | ^~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5829:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5829 | CORE_LOGF_ERRNO_EXX(94, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_SendMsg': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6538:9: note: in expansion of macro 'CORE_LOGF_X' + 6538 | CORE_LOGF_X(53, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5864:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 5864 | CORE_LOGF_ERRNO_X(154, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6550:13: note: in expansion of macro 'CORE_LOGF_X' + 6550 | CORE_LOGF_X(51, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Shutdown': make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/compress.cpp -o compress.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/stream.cpp -o stream.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/streambuf.cpp -o streambuf.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/stream_util.cpp -o stream_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/bzip2.cpp -o bzip2.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/zlib.cpp -o zlib.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-securit/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' @@ -10158,9 +10406,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5881:9: note: in expansion of macro 'CORE_LOGF_X' - 5881 | CORE_LOGF_X(88, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6588:9: note: in expansion of macro 'CORE_LOGF_X' + 6588 | CORE_LOGF_X(54, eLOG_Error, | ^~~~~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi TMPL=cgi -w -j12 --jobserver-auth=7,8 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10173,12 +10422,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5890:9: note: in expansion of macro 'CORE_LOGF_X' - 5890 | CORE_LOGF_X(89, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6595:9: note: in expansion of macro 'CORE_LOGF_X' + 6595 | CORE_LOGF_X(55, eLOG_Error, | ^~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10191,90 +10437,86 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5940:17: note: in expansion of macro 'CORE_LOGF_X' - 5940 | CORE_LOGF_X(90, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6603:9: note: in expansion of macro 'CORE_LOGF_X' + 6603 | CORE_LOGF_X(15, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Wait': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/run_with_lock: Adjusting base from make_cgi to make__cgi_common per /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/.#lock-map. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:5986:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5986 | CORE_LOGF_ERRNO_EXX(91, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api TMPL=compress -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'TRIGGER_Create': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6749:9: note: in expansion of macro 'CORE_LOGF_X' + 6749 | CORE_LOGF_X(56, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6031:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 6031 | CORE_LOGF_ERRNO_X(28, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6777:13: note: in expansion of macro 'CORE_LOGF_X' + 6777 | CORE_LOGF_X(57, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6041:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 6041 | CORE_LOGF_ERRNO_X(143, eLOG_Warning, errno, - | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6791:13: note: in expansion of macro 'CORE_LOGF_X' + 6791 | CORE_LOGF_X(58, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6053:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 6053 | CORE_LOGF_ERRNO_X(29, eLOG_Error, errno, - | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6805:17: note: in expansion of macro 'CORE_LOGF_X' + 6805 | CORE_LOGF_X(59, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6063:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 6063 | CORE_LOGF_ERRNO_X(30, eLOG_Warning, errno, - | ^~~~~~~~~~~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi TMPL=cgi -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6814:17: note: in expansion of macro 'CORE_LOGF_X' + 6814 | CORE_LOGF_X(60, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10287,10 +10529,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6082:13: note: in expansion of macro 'CORE_LOGF_X' - 6082 | CORE_LOGF_X(116, eLOG_Note, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6824:13: note: in expansion of macro 'CORE_LOGF_X' + 6824 | CORE_LOGF_X(61, eLOG_Warning, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'TRIGGER_Close': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c: In function 's_VT_Open': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10303,11 +10547,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6136:9: note: in expansion of macro 'CORE_LOGF_X' - 6136 | CORE_LOGF_X(117, eLOG_Note, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/run_with_lock: Adjusting base from make_cgi to make__cgi_common per /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/.#lock-map. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'LSOCK_GetOSHandleEx': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c:172:13: note: in expansion of macro 'CORE_LOGF_X' + 172 | CORE_LOGF_X(33, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10320,10 +10562,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6360:9: note: in expansion of macro 'CORE_LOGF_X' - 6360 | CORE_LOGF_X(46, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6834:9: note: in expansion of macro 'CORE_LOGF_X' + 6834 | CORE_LOGF_X(62, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Reconnect': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetTimeout': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10336,9 +10578,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6528:9: note: in expansion of macro 'CORE_LOGF_X' - 6528 | CORE_LOGF_X(52, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6969:9: note: in expansion of macro 'CORE_LOGF_X' + 6969 | CORE_LOGF_X(63, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_GetTimeout': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10351,9 +10594,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6538:9: note: in expansion of macro 'CORE_LOGF_X' - 6538 | CORE_LOGF_X(53, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7010:9: note: in expansion of macro 'CORE_LOGF_X' + 7010 | CORE_LOGF_X(64, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Read': +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10366,10 +10611,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6550:13: note: in expansion of macro 'CORE_LOGF_X' - 6550 | CORE_LOGF_X(51, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7052:13: note: in expansion of macro 'CORE_LOGF_X' + 7052 | CORE_LOGF_X(65, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Shutdown': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10382,10 +10626,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6588:9: note: in expansion of macro 'CORE_LOGF_X' - 6588 | CORE_LOGF_X(54, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7062:9: note: in expansion of macro 'CORE_LOGF_X' + 7062 | CORE_LOGF_X(66, eLOG_Error, | ^~~~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_ReadLine': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10398,9 +10642,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6595:9: note: in expansion of macro 'CORE_LOGF_X' - 6595 | CORE_LOGF_X(55, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7096:9: note: in expansion of macro 'CORE_LOGF_X' + 7096 | CORE_LOGF_X(125, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Pushback': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10413,11 +10658,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6603:9: note: in expansion of macro 'CORE_LOGF_X' - 6603 | CORE_LOGF_X(15, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7176:9: note: in expansion of macro 'CORE_LOGF_X' + 7176 | CORE_LOGF_X(67, eLOG_Error, | ^~~~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Wait': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Write': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10430,9 +10674,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6749:9: note: in expansion of macro 'CORE_LOGF_X' - 6749 | CORE_LOGF_X(56, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7233:17: note: in expansion of macro 'CORE_LOGF_X' + 7233 | CORE_LOGF_X(68, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10445,8 +10689,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6777:13: note: in expansion of macro 'CORE_LOGF_X' - 6777 | CORE_LOGF_X(57, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7260:13: note: in expansion of macro 'CORE_LOGF_X' + 7260 | CORE_LOGF_X(69, eLOG_Error, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -10460,9 +10704,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6791:13: note: in expansion of macro 'CORE_LOGF_X' - 6791 | CORE_LOGF_X(58, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7270:9: note: in expansion of macro 'CORE_LOGF_X' + 7270 | CORE_LOGF_X(70, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Abort': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10475,9 +10720,32 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6805:17: note: in expansion of macro 'CORE_LOGF_X' - 6805 | CORE_LOGF_X(59, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7289:9: note: in expansion of macro 'CORE_LOGF_X' + 7289 | CORE_LOGF_X(71, eLOG_Warning, + | ^~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgi.cpp -o ncbicgi.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp.cpp -o cgiapp.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgictx.cpp -o cgictx.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgir.cpp -o ncbicgir.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbires.cpp -o ncbires.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ref_args.cpp -o ref_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOUR/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7296:9: note: in expansion of macro 'CORE_LOGF_X' + 7296 | CORE_LOGF_X(72, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_GetOSHandleEx': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10490,9 +10758,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6814:17: note: in expansion of macro 'CORE_LOGF_X' - 6814 | CORE_LOGF_X(60, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7443:9: note: in expansion of macro 'CORE_LOGF_X' + 7443 | CORE_LOGF_X(73, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetCork': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10505,9 +10774,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6824:13: note: in expansion of macro 'CORE_LOGF_X' - 6824 | CORE_LOGF_X(61, eLOG_Warning, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7505:9: note: in expansion of macro 'CORE_LOGF_X' + 7505 | CORE_LOGF_X(158, eLOG_Warning, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10520,32 +10789,25 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6834:9: note: in expansion of macro 'CORE_LOGF_X' - 6834 | CORE_LOGF_X(62, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7512:9: note: in expansion of macro 'CORE_LOGF_X' + 7512 | CORE_LOGF_X(159, eLOG_Error, | ^~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/compress.cpp -o compress.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/stream.cpp -o stream.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/streambuf.cpp -o streambuf.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/stream_util.cpp -o stream_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/bzip2.cpp -o bzip2.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/zlib.cpp -o zlib.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-securitmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgi.cpp -o ncbicgi.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp.cpp -o cgiapp.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgictx.cpp -o cgictx.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgir.cpp -o ncbicgir.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbires.cpp -o ncbires.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ref_args.cpp -o ref_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOUR/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetTimeout': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7525:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 7525 | CORE_LOGF_ERRNO_EXX(160, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_DisableOSSendDelay': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10558,10 +10820,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:6969:9: note: in expansion of macro 'CORE_LOGF_X' - 6969 | CORE_LOGF_X(63, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7547:9: note: in expansion of macro 'CORE_LOGF_X' + 7547 | CORE_LOGF_X(156, eLOG_Warning, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_GetTimeout': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10574,10 +10835,41 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7010:9: note: in expansion of macro 'CORE_LOGF_X' - 7010 | CORE_LOGF_X(64, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7554:9: note: in expansion of macro 'CORE_LOGF_X' + 7554 | CORE_LOGF_X(157, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Read': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7567:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 7567 | CORE_LOGF_ERRNO_EXX(75, eLOG_Warning, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_CreateEx': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7618:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 7618 | CORE_LOGF_ERRNO_EXX(76, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_Bind': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10590,9 +10882,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7052:13: note: in expansion of macro 'CORE_LOGF_X' - 7052 | CORE_LOGF_X(65, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7738:9: note: in expansion of macro 'CORE_LOGF_X' + 7738 | CORE_LOGF_X(79, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10605,10 +10897,48 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7062:9: note: in expansion of macro 'CORE_LOGF_X' - 7062 | CORE_LOGF_X(66, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7745:9: note: in expansion of macro 'CORE_LOGF_X' + 7745 | CORE_LOGF_X(78, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_ReadLine': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7763:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 7763 | CORE_LOGF_ERRNO_EXX(80, error != SOCK_EADDRINUSE + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7779:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 7779 | CORE_LOGF_ERRNO_EXX(114, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_Connect': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10621,10 +10951,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7096:9: note: in expansion of macro 'CORE_LOGF_X' - 7096 | CORE_LOGF_X(125, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7808:9: note: in expansion of macro 'CORE_LOGF_X' + 7808 | CORE_LOGF_X(82, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Pushback': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10637,10 +10966,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7176:9: note: in expansion of macro 'CORE_LOGF_X' - 7176 | CORE_LOGF_X(67, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7815:9: note: in expansion of macro 'CORE_LOGF_X' + 7815 | CORE_LOGF_X(81, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Write': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10653,9 +10981,40 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7233:17: note: in expansion of macro 'CORE_LOGF_X' - 7233 | CORE_LOGF_X(68, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7834:9: note: in expansion of macro 'CORE_LOGF_X' + 7834 | CORE_LOGF_X(83, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7847:9: note: in expansion of macro 'CORE_LOGF_X' + 7847 | CORE_LOGF_X(84, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7876:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 7876 | CORE_LOGF_ERRNO_EXX(85, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_WaitMsg': In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_Adjust': @@ -10771,21 +11130,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7260:13: note: in expansion of macro 'CORE_LOGF_X' - 7260 | CORE_LOGF_X(69, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ @@ -10807,26 +11151,25 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7270:9: note: in expansion of macro 'CORE_LOGF_X' - 7270 | CORE_LOGF_X(70, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7904:9: note: in expansion of macro 'CORE_LOGF_X' + 7904 | CORE_LOGF_X(96, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_ConnectAndSend': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Abort': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1203:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' - 1203 | CORE_LOGF_ERRNO_X(6, uuu->reused ? eLOG_Trace : eLOG_Error, error, - | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7911:9: note: in expansion of macro 'CORE_LOGF_X' + 7911 | CORE_LOGF_X(95, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_RecvMsg': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10839,9 +11182,26 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7289:9: note: in expansion of macro 'CORE_LOGF_X' - 7289 | CORE_LOGF_X(71, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7964:9: note: in expansion of macro 'CORE_LOGF_X' + 7964 | CORE_LOGF_X(93, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_ConnectAndSend': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1203:9: note: in expansion of macro 'CORE_LOGF_ERRNO_X' + 1203 | CORE_LOGF_ERRNO_X(6, uuu->reused ? eLOG_Trace : eLOG_Error, error, + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 'x_ReadChunkHead': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10854,10 +11214,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7296:9: note: in expansion of macro 'CORE_LOGF_X' - 7296 | CORE_LOGF_X(72, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1332:9: note: in expansion of macro 'CORE_LOGF_X' + 1332 | CORE_LOGF_X(23, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 'x_ReadChunkHead': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 'x_ReadChunkTail': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10870,10 +11230,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1332:9: note: in expansion of macro 'CORE_LOGF_X' - 1332 | CORE_LOGF_X(23, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7971:9: note: in expansion of macro 'CORE_LOGF_X' + 7971 | CORE_LOGF_X(92, eLOG_Error, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 'x_ReadChunkTail': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -10889,6 +11248,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1373:9: note: in expansion of macro 'CORE_LOGF_X' 1373 | CORE_LOGF_X(25, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_SendMsg': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_ReadData': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -10920,7 +11280,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1439:13: note: in expansion of macro 'CORE_LOGF_ERRNO_X' 1439 | CORE_LOGF_ERRNO_X(25, eLOG_Error, error, | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_GetOSHandleEx': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8008:9: note: in expansion of macro 'CORE_LOGF_X' + 8008 | CORE_LOGF_X(87, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_ReadHeader': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -10949,8 +11323,24 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7443:9: note: in expansion of macro 'CORE_LOGF_X' - 7443 | CORE_LOGF_X(73, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8015:9: note: in expansion of macro 'CORE_LOGF_X' + 8015 | CORE_LOGF_X(86, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_WipeMsg': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8047:9: note: in expansion of macro 'CORE_LOGF_X' + 8047 | CORE_LOGF_X(98, eLOG_Error, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -10967,7 +11357,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1554:13: note: in expansion of macro 'CORE_LOGF_X' 1554 | CORE_LOGF_X(8, level, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetCork': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11025,9 +11414,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1710:25: note: in expansion of macro 'CORE_LOGF_X' - 1710 | CORE_LOGF_X(10, eLOG_Critical, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8054:9: note: in expansion of macro 'CORE_LOGF_X' + 8054 | CORE_LOGF_X(97, eLOG_Error, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11040,9 +11429,25 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7505:9: note: in expansion of macro 'CORE_LOGF_X' - 7505 | CORE_LOGF_X(158, eLOG_Warning, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8074:9: note: in expansion of macro 'CORE_LOGF_X' + 8074 | CORE_LOGF_X(99, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_SetBroadcast': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1710:25: note: in expansion of macro 'CORE_LOGF_X' + 1710 | CORE_LOGF_X(10, eLOG_Critical, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11070,8 +11475,23 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7512:9: note: in expansion of macro 'CORE_LOGF_X' - 7512 | CORE_LOGF_X(159, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8092:9: note: in expansion of macro 'CORE_LOGF_X' + 8092 | CORE_LOGF_X(101, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8099:9: note: in expansion of macro 'CORE_LOGF_X' + 8099 | CORE_LOGF_X(100, eLOG_Error, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -11082,6 +11502,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' + 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8119:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 8119 | CORE_LOGF_ERRNO_EXX(102, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' + 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) + | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:167:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 167 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, 0, \ | ^~~~~~~~~~~~~~~~~ @@ -11148,6 +11583,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1984:17: note: in expansion of macro 'CORE_DATAF_X' 1984 | CORE_DATAF_X(14, eLOG_Note, s, n, | ^~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetReuseAddress': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11163,46 +11599,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:1993:13: note: in expansion of macro 'CORE_LOGF_X' 1993 | CORE_LOGF_X(15, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_Read': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7525:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 7525 | CORE_LOGF_ERRNO_EXX(160, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_DisableOSSendDelay': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7547:9: note: in expansion of macro 'CORE_LOGF_X' - 7547 | CORE_LOGF_X(156, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_Read': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ @@ -11216,122 +11621,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:2224:13: note: in expansion of macro 'CORE_LOGF_X' - 2224 | CORE_LOGF_X(21, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7554:9: note: in expansion of macro 'CORE_LOGF_X' - 7554 | CORE_LOGF_X(157, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7567:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 7567 | CORE_LOGF_ERRNO_EXX(75, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_CreateEx': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_VT_Write': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:2481:9: note: in expansion of macro 'CORE_LOGF_X' - 2481 | CORE_LOGF_X(24, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7618:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 7618 | CORE_LOGF_ERRNO_EXX(76, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_Bind': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7738:9: note: in expansion of macro 'CORE_LOGF_X' - 7738 | CORE_LOGF_X(79, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7745:9: note: in expansion of macro 'CORE_LOGF_X' - 7745 | CORE_LOGF_X(78, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7763:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 7763 | CORE_LOGF_ERRNO_EXX(80, error != SOCK_EADDRINUSE +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8285:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 8285 | CORE_LOGF_ERRNO_EXX(74, eLOG_Warning, | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -11339,92 +11636,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' 224 | _mess.func = CORE_CURRENT_FUNCTION; \ | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7779:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 7779 | CORE_LOGF_ERRNO_EXX(114, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_Connect': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7808:9: note: in expansion of macro 'CORE_LOGF_X' - 7808 | CORE_LOGF_X(82, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7815:9: note: in expansion of macro 'CORE_LOGF_X' - 7815 | CORE_LOGF_X(81, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7834:9: note: in expansion of macro 'CORE_LOGF_X' - 7834 | CORE_LOGF_X(83, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7847:9: note: in expansion of macro 'CORE_LOGF_X' - 7847 | CORE_LOGF_X(84, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7876:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 7876 | CORE_LOGF_ERRNO_EXX(85, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_WaitMsg': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:2224:13: note: in expansion of macro 'CORE_LOGF_X' + 2224 | CORE_LOGF_X(21, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c: In function 's_VT_Write': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11437,9 +11658,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7904:9: note: in expansion of macro 'CORE_LOGF_X' - 7904 | CORE_LOGF_X(96, eLOG_Error, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:2481:9: note: in expansion of macro 'CORE_LOGF_X' + 2481 | CORE_LOGF_X(24, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetupSSLInternal': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -11449,17 +11671,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' + 159 | DO_CORE_LOG(0, 0, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7911:9: note: in expansion of macro 'CORE_LOGF_X' - 7911 | CORE_LOGF_X(95, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_RecvMsg': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8674:13: note: in expansion of macro 'CORE_LOGF' + 8674 | CORE_LOGF(eLOG_Critical, ("%s reset SSL while it is in use",verb)); + | ^~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgictx.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgi.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -11568,110 +11787,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7964:9: note: in expansion of macro 'CORE_LOGF_X' - 7964 | CORE_LOGF_X(93, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:7971:9: note: in expansion of macro 'CORE_LOGF_X' - 7971 | CORE_LOGF_X(92, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_SendMsg': -ucible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.c -o ncbi_lb.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c -o ncbi_socket_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_file_connector.c -o ncbi_file_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c -o ncbi_http_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_memory_connector.c -o ncbi_memory_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c -o ncbi_service_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8008:9: note: in expansion of macro 'CORE_LOGF_X' - 8008 | CORE_LOGF_X(87, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8015:9: note: in expansion of macro 'CORE_LOGF_X' - 8015 | CORE_LOGF_X(86, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_WipeMsg': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8047:9: note: in expansion of macro 'CORE_LOGF_X' - 8047 | CORE_LOGF_X(98, eLOG_Error, - | ^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_run.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgir.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -11780,8 +11899,28 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgi.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -11890,40 +12029,21 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8054:9: note: in expansion of macro 'CORE_LOGF_X' - 8054 | CORE_LOGF_X(97, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8074:9: note: in expansion of macro 'CORE_LOGF_X' - 8074 | CORE_LOGF_X(99, eLOG_Error, - | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbires.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgictx.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -12050,10 +12170,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] +ucible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.c -o ncbi_lb.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_connector.c -o ncbi_socket_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_file_connector.c -o ncbi_file_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c -o ncbi_http_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_memory_connector.c -o ncbi_memory_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c -o ncbi_service_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' @@ -12068,41 +12191,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'DSOCK_SetBroadcast': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8092:9: note: in expansion of macro 'CORE_LOGF_X' - 8092 | CORE_LOGF_X(101, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8099:9: note: in expansion of macro 'CORE_LOGF_X' - 8099 | CORE_LOGF_X(100, eLOG_Error, - | ^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbicgir.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_run.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -12211,59 +12302,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8119:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 8119 | CORE_LOGF_ERRNO_EXX(102, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetReuseAddress': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:243:5: note: in expansion of macro 'DO_CORE_LOG_X' - 243 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, error, descr, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:183:5: note: in expansion of macro 'DO_CORE_LOG_ERRNO' - 183 | DO_CORE_LOG_ERRNO(NCBI_C_ERRCODE_X, subcode, level, error, descr, \ - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8285:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 8285 | CORE_LOGF_ERRNO_EXX(74, eLOG_Warning, - | ^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp.cpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/ncbires.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -12372,14 +12414,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -12398,15 +12432,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_SetupSSLInternal': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c: In function 's_OpenDispatcher': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12416,12 +12462,49 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:159:5: note: in expansion of macro 'DO_CORE_LOG' - 159 | DO_CORE_LOG(0, 0, level, \ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:8674:13: note: in expansion of macro 'CORE_LOGF' - 8674 | CORE_LOGF(eLOG_Critical, ("%s reset SSL while it is in use",verb)); - | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:102:9: note: in expansion of macro 'CORE_LOGF_X' + 102 | CORE_LOGF_X(5, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c: In function 's_ParseHeader': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:179:49: warning: format '%n' expects argument of type 'int *', but argument 7 has type 'unsigned int *' [-Wformat=] + 179 | if (sscanf(header, "%u.%u.%u.%u%n", &i1, &i2, &i3, &i4, &n) < 4 + | ~^ ~~ + | | | + | int * unsigned int * + | %n +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:180:51: warning: format '%n' expects argument of type 'int *', but argument 5 has type 'unsigned int *' [-Wformat=] + 180 | || sscanf(header + n, "%hu%x%n", &uuu->port, &tkt, &m) < 2 + | ~^ ~~ + | | | + | int * unsigned int * + | %n +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c: In function 's_Open': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:947:13: note: in expansion of macro 'CORE_LOGF_X' + 947 | CORE_LOGF_X(4, eLOG_Error, + | ^~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:50: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 'x_FTPCloseData': @@ -12517,37 +12600,6 @@ 296 | CORE_LOGF_X(10, eLOG_Error, | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 's_FTPCommandEx': -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c: In function 's_OpenDispatcher': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:102:9: note: in expansion of macro 'CORE_LOGF_X' - 102 | CORE_LOGF_X(5, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c: In function 's_ParseHeader': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:179:49: warning: format '%n' expects argument of type 'int *', but argument 7 has type 'unsigned int *' [-Wformat=] - 179 | if (sscanf(header, "%u.%u.%u.%u%n", &i1, &i2, &i3, &i4, &n) < 4 - | ~^ ~~ - | | | - | int * unsigned int * - | %n -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:180:51: warning: format '%n' expects argument of type 'int *', but argument 5 has type 'unsigned int *' [-Wformat=] - 180 | || sscanf(header + n, "%hu%x%n", &uuu->port, &tkt, &m) < 2 - | ~^ ~~ - | | | - | int * unsigned int * - | %n /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12579,69 +12631,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:618:9: note: in expansion of macro 'CORE_LOGF_X' 618 | CORE_LOGF_X(3, eLOG_Trace, | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c: In function 's_Open': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:947:13: note: in expansion of macro 'CORE_LOGF_X' - 947 | CORE_LOGF_X(4, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:973:13: note: in expansion of macro 'CORE_LOGF_X' - 973 | CORE_LOGF_X(9, eLOG_Warning, - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 'x_FTPPassive': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c: In function 's_VT_Open': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:1166:13: note: in expansion of macro 'CORE_LOGF_X' - 1166 | CORE_LOGF_X(6, eLOG_Error, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:1178:9: note: in expansion of macro 'CORE_LOGF_X' - 1178 | CORE_LOGF_X(10, eLOG_Error, - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -12721,6 +12711,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:2014:17: note: in expansion of macro 'CORE_LOGF_X' 2014 | CORE_LOGF_X(6, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 's_CreateConnector': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' + 155 | DO_CORE_LOG(0, 0, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:2328:9: note: in expansion of macro 'CORE_LOG' + 2328 | CORE_LOG(eLOG_Critical, "fFTP_UseProxy not yet implemented"); + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp_cached.hpp:35, @@ -12833,22 +12839,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c: In function 's_CreateConnector': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:155:5: note: in expansion of macro 'DO_CORE_LOG' - 155 | DO_CORE_LOG(0, 0, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ftp_connector.c:2328:9: note: in expansion of macro 'CORE_LOG' - 2328 | CORE_LOG(eLOG_Critical, "fFTP_UseProxy not yet implemented"); - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -12876,15 +12866,52 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c: In function 'SERV_SetImplicitServerType': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:1115:9: warning: pointer 'svc' may be used after 'realloc' [-Wuse-after-free] - 1115 | free(svc); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:1113:25: note: call to 'realloc' here - 1113 | if (!(buf = (char*) realloc(svc, len + sizeof(CONN_IMPLICIT_SERVER_TYPE) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1114 | + 2/*"=\0"*/) + strlen(typ))) { - | ~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:973:13: note: in expansion of macro 'CORE_LOGF_X' + 973 | CORE_LOGF_X(9, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c: In function 's_VT_Open': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:1166:13: note: in expansion of macro 'CORE_LOGF_X' + 1166 | CORE_LOGF_X(6, eLOG_Error, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_connector.c:1178:9: note: in expansion of macro 'CORE_LOGF_X' + 1178 | CORE_LOGF_X(10, eLOG_Error, + | ^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.h:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c:36: @@ -12894,26 +12921,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ | ^~~~~~~~~~ -nclude /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/optimize_target_freq.c -o optimize_target_freq.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/redo_alignment.c -o redo_alignment.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/smith_waterman.c -o smith_waterman.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/unified_pvalues.c -o unified_pvalues.o -/bin/rm -f libcomposition_adjustment.so .libcomposition_adjustment.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libcomposition_adjustment.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC compo_heap.o compo_mode_condition.o composition_adjustment.o matrix_frequency_data.o nlm_linear_algebra.o optimize_target_freq.o redo_alignment.o smith_waterman.o unified_pvalues.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libcomposition_adjustment.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libcomposition_adjustment.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libcomposition_adjustment.so -/bin/ln -f .composition_adjustment.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.composition_adjustment.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbosp.h:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c: In function 's_Resolve': @@ -12932,6 +12939,24 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c:205:9: note: in expansion of macro 'CORE_LOGF_X' 205 | CORE_LOGF_X(5, eLOG_Error, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c: In function 'SERV_SetImplicitServerType': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:1115:9: warning: pointer 'svc' may be used after 'realloc' [-Wuse-after-free] + 1115 | free(svc); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service.c:1113:25: note: call to 'realloc' here + 1113 | if (!(buf = (char*) realloc(svc, len + sizeof(CONN_IMPLICIT_SERVER_TYPE) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1114 | + 2/*"=\0"*/) + strlen(typ))) { + | ~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbosp.h:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'g_LBOS_StringConcat': @@ -13363,14 +13388,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1218:13: note: in expansion of macro 'CORE_LOGF_X' 1218 | CORE_LOGF_X(1, eLOG_Warning, | ^~~~~~~~~~~ -.c -o ncbi_ftp_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_version.c -o ncbi_version.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_iprange.c -o ncbi_iprange.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_local.c -o ncbi_local.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c -o ncbi_dispd.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c -o ncbi_lbos.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c -o ncbi_linkerd.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_CheckAnnounceArgs': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_CheckAnnounceArgs': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13768,21 +13786,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:1932:9: note: in expansion of macro 'CORE_LOG' 1932 | CORE_LOG(eLOG_Critical, | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ - | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiatomic.h: In function 'NCBI_SwapPointers': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiatomic.h:171:1: warning: no return statement in function returning non-void [-Wreturn-type] - 171 | } - | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_Announce': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ @@ -13914,72 +13917,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2341:13: note: in expansion of macro 'CORE_LOG_X' 2341 | CORE_LOG_X(eLBOS_DNSResolve, eLOG_Critical, | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_DeannounceAll': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2399:9: note: in expansion of macro 'CORE_LOG_X' - 2399 | CORE_LOG_X(eLBOS_MemAlloc, eLOG_Warning, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_CheckConfArgs': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2451:9: note: in expansion of macro 'CORE_LOG_X' - 2451 | CORE_LOG_X(eLBOS_InvalidArgs, eLOG_Warning, - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' - 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2458:13: note: in expansion of macro 'CORE_LOGF_X' - 2458 | CORE_LOGF_X(eLBOS_InvalidArgs, eLOG_Warning, - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_ServiceVersionSet': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2550:9: note: in expansion of macro 'CORE_LOG_X' - 2550 | CORE_LOG_X(eLBOS_InvalidArgs, eLOG_Warning, - | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] 91 | fSERV_IncludePrivate = 0x80000000, | ^~~~~~~~~~ @@ -13987,12 +13927,19 @@ 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiatomic.h: In function 'NCBI_SwapPointers': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiatomic.h:171:1: warning: no return statement in function returning non-void [-Wreturn-type] 171 | } | ^ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, +.c -o ncbi_ftp_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_version.c -o ncbi_version.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_iprange.c -o ncbi_iprange.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_local.c -o ncbi_local.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_dispd.c -o ncbi_dispd.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c -o ncbi_lbos.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c -o ncbi_linkerd.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c: In function 's_SetEndpoint': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] @@ -14722,6 +14669,99 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:819:13: note: in expansion of macro 'CORE_LOGF_X' 819 | CORE_LOGF_X(eLSub_Logic, eLOG_Critical, | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:826:9: note: in expansion of macro 'CORE_LOG_X' + 826 | CORE_LOG_X(eLSub_BadData, eLOG_Warning, "Unable to resolve endpoint."); + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_DeannounceAll': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2399:9: note: in expansion of macro 'CORE_LOG_X' + 2399 | CORE_LOG_X(eLBOS_MemAlloc, eLOG_Warning, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 's_LBOS_CheckConfArgs': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2451:9: note: in expansion of macro 'CORE_LOG_X' + 2451 | CORE_LOG_X(eLBOS_InvalidArgs, eLOG_Warning, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:151:5: note: in expansion of macro 'DO_CORE_LOG' + 151 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2458:13: note: in expansion of macro 'CORE_LOGF_X' + 2458 | CORE_LOGF_X(eLBOS_InvalidArgs, eLOG_Warning, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c: In function 'LBOS_ServiceVersionSet': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] + 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' + 224 | _mess.func = CORE_CURRENT_FUNCTION; \ + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' + 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' + 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos.c:2550:9: note: in expansion of macro 'CORE_LOG_X' + 2550 | CORE_LOG_X(eLBOS_InvalidArgs, eLOG_Warning, + | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lb.h:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 91 | fSERV_IncludePrivate = 0x80000000, + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiatomic.h: In function 'NCBI_SwapPointers': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiatomic.h:171:1: warning: no return statement in function returning non-void [-Wreturn-type] + 171 | } + | ^ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_once.h:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_CreateConnectorHttp': @@ -14875,21 +14915,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:826:9: note: in expansion of macro 'CORE_LOG_X' - 826 | CORE_LOG_X(eLSub_BadData, eLOG_Warning, "Unable to resolve endpoint."); - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] - 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:224:33: note: in expansion of macro 'CORE_CURRENT_FUNCTION' - 224 | _mess.func = CORE_CURRENT_FUNCTION; \ - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:239:5: note: in expansion of macro 'DO_CORE_LOG_X' - 239 | DO_CORE_LOG_X(code, subcode, level, message, dynamic, 0, 0, 0, 0) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:147:5: note: in expansion of macro 'DO_CORE_LOG' - 147 | DO_CORE_LOG(NCBI_C_ERRCODE_X, subcode, level, \ - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:321:9: note: in expansion of macro 'CORE_LOG_X' 321 | CORE_LOG_X(eNSub_Connect, eLOG_Error, "Unable to create connector."); | ^~~~~~~~~~ @@ -15773,6 +15798,51 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_object_add': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] + 135 | strncpy(output_string, string, n); + | ^ +In function 'parson_strdup', + inlined from 'x_json_object_add' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:318:28: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:140:12: note: length computed here + 140 | return parson_strndup(string, strlen(string)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +nclude /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/optimize_target_freq.c -o optimize_target_freq.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/redo_alignment.c -o redo_alignment.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/smith_waterman.c -o smith_waterman.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/composition_adjustment/unified_pvalues.c -o unified_pvalues.o +/bin/rm -f libcomposition_adjustment.so .libcomposition_adjustment.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libcomposition_adjustment.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC compo_heap.o compo_mode_condition.o composition_adjustment.o matrix_frequency_data.o nlm_linear_algebra.o optimize_target_freq.o redo_alignment.o smith_waterman.o unified_pvalues.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libcomposition_adjustment.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libcomposition_adjustment.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libcomposition_adjustment.so +/bin/ln -f .composition_adjustment.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.composition_adjustment.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_value_init_string': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] + 135 | strncpy(output_string, string, n); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:1119:18: note: length computed here + 1119 | string_len = strlen(string); + | ^~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_parse_string_with_comments': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] + 135 | strncpy(output_string, string, n); + | ^ +In function 'parson_strdup', + inlined from 'x_json_parse_string_with_comments' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:913:27: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:140:12: note: length computed here + 140 | return parson_strndup(string, strlen(string)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_value_deep_copy': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] + 135 | strncpy(output_string, string, n); + | ^ +In function 'parson_strdup', + inlined from 'x_json_value_deep_copy' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:1213:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:140:12: note: length computed here + 140 | return parson_strndup(string, strlen(string)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_core_cxx.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -15883,171 +15953,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_object_add': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] - 135 | strncpy(output_string, string, n); - | ^ -In function 'parson_strdup', - inlined from 'x_json_object_add' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:318:28: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:140:12: note: length computed here - 140 | return parson_strndup(string, strlen(string)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c -o ncbi_namerd.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c -o parson.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_localip.c -o ncbi_localip.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket_cxx.cpp -o ncbi_socket_cxx.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_core_cxx.cpp -o ncbi_core_cxx.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/email_diag_handler.cpp -o email_diag_handler.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/b/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_value_init_string': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] - 135 | strncpy(output_string, string, n); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:1119:18: note: length computed here - 1119 | string_len = strlen(string); - | ^~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_parse_string_with_comments': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] - 135 | strncpy(output_string, string, n); - | ^ -In function 'parson_strdup', - inlined from 'x_json_parse_string_with_comments' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:913:27: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:140:12: note: length computed here - 140 | return parson_strndup(string, strlen(string)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_value_deep_copy': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:135:5: warning: '__builtin_strncpy' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] - 135 | strncpy(output_string, string, n); - | ^ -In function 'parson_strdup', - inlined from 'x_json_value_deep_copy' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:1213:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c:140:12: note: length computed here - 140 | return parson_strndup(string, strlen(string)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/string.h:535, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ansi_ext.h:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:75: -In function 'memcpy', - inlined from 'x_tvcpy' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2658:5, - inlined from 's_WritePending' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3676:9: -/usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:10: warning: '*(__int128 unsigned *)((char *)&wtv + offsetof(struct timeval, tv_sec))' may be used uninitialized [-Wmaybe-uninitialized] - 29 | return __builtin___memcpy_chk (__dest, __src, __len, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 30 | __glibc_objsize0 (__dest)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_WritePending': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3627:20: note: '*(__int128 unsigned *)((char *)&wtv + offsetof(struct timeval, tv_sec))' was declared here - 3627 | struct timeval wtv; - | ^~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/hookdatakey.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/hookdata.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/hookdata.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CHookDataBase::CHookDataBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/hookdata.cpp:48:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/hookdata.hpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CHookDataBase::CHookDataBase()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/logging/message.cpp -o message.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/logging/listener.cpp -o listener.o -/bin/rm -f libxlogging.so .libxlogging.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxlogging.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC message.o listener.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxlogging.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxlogging.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxlogging.so -/bin/ln -f .xlogging.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xlogging.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info_reader.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbithr_conf.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimtx.hpp:62, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbienv.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/env_reg.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info_reader.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -ILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeref.cpp -o typeref.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typemap.cpp -o typemap.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp -o stdtypes.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/enumerated.cpp -o enumerated.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/ptrinfo.cpp -o ptrinfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/autoptrinfo.cpp -o autoptrinfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/continfo.cpp -o continfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blastuild/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_conn_streambuf.cpp -o ncbi_conn_streambuf.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_conn_stream.cpp -o ncbi_conn_stream.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_conn_test.cpp -o ncbi_conn_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_misc.cpp -o ncbi_misc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namedpipe.cpp -o ncbi_namedpipe.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namedpipe_connector.cpp -o ncbi_namedpipe_connector.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp -o ncbi_pipe.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_safe_static.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbithr.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/node.cpp:32: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CNCBINode; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CNCBINode; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/new_allocator.h:181:13, - inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, - inlined from 'void std::__cxx11::_List_base<_Tp, _Alloc>::_M_clear() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/list.tcc:77:31, - inlined from 'std::__cxx11::_List_base<_Tp, _Alloc>::~_List_base() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:575:17, - inlined from 'std::__cxx11::list<_Tp, _Alloc>::~list() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:903:7, - inlined from 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = std::__cxx11::list >]' at /usr/include/c++/12/bits/unique_ptr.h:95:2: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = std::__cxx11::list >]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil.cpp -o sequtil.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_convert.cpp -o sequtil_convert.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_convert_imp.cpp -o sequtil_convert_imp.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_manip.cpp -o sequtil_manip.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_tables.cpp -o sequtil_tables.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_shared.cpp -o sequtil_shared.o -/bin/rm -f libsequtil.so .libsequtil.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libsequtil.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC sequtil.o sequtil_convert.o sequtil_convert_imp.o sequtil_manip.o sequtil_tables.o sequtil_shared.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libsequtil.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libsequtil.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libsequtil.so -/bin/ln -f .sequtil.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.sequtil.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/bmake[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' CE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_run.cpp -o cgi_run.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_util.cpp -o cgi_util.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_serial.cpp -o cgi_serial.o @@ -16055,22 +15967,7 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_exception.cpp -o cgi_exception.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp_cached.cpp -o cgiapp_cached.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_entry_reader.cpp -o cgi_entry_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeref.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialdef.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/typeref.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeref.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/user_agent.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -16199,23 +16096,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeinfo.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/interprocess_lock.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_process.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbithr.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeinfo.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/compress/reader_zlib.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/reader_zlib.cpp:31: In member function 'void ncbi::CObject::RemoveReference() const', @@ -16231,6 +16111,60 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ +uild/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_conn_streambuf.cpp -o ncbi_conn_streambuf.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_conn_stream.cpp -o ncbi_conn_stream.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_conn_test.cpp -o ncbi_conn_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_misc.cpp -o ncbi_misc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namedpipe.cpp -o ncbi_namedpipe.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namedpipe_connector.cpp -o ncbi_namedpipe_connector.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp -o ncbi_pipe.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeref.cpp -o typeref.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typemap.cpp -o typemap.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp -o stdtypes.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/enumerated.cpp -o enumerated.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/ptrinfo.cpp -o ptrinfo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/autoptrinfo.cpp -o autoptrinfo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/continfo.cpp -o continfo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blastIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimtx.hpp:64, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/plugin_manager.hpp:70, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/plugin_manager_store.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp_cached.cpp:33: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CPluginManager; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CPluginManager; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::ICache* ncbi::CCgiApplicationCached::GetCacheStorage() const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp_cached.cpp:89:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual ncbi::ICache* ncbi::CCgiApplicationCached::GetCacheStorage() const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_url.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/ncbi_url.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgi_util.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/ncbicgi.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/impl/cgi_entry_reader.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_entry_reader.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CCgiEntry::SData; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CCgiEntry::SData; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CCgiEntry::~CCgiEntry()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/ncbicgi.hpp:412:24, + inlined from 'ncbi::TCgiEntriesI ncbi::CCgiEntryReaderContext::GetNextEntry()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_entry_reader.cpp:269:67: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::TCgiEntriesI ncbi::CCgiEntryReaderContext::GetNextEntry()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp: In constructor 'ncbi::CPipe::CPipe(const std::string&, const std::vector >&, TCreateFlags, const std::string&, const char* const*, size_t)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp:1856:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1856 | auto_ptr pipe_handle_ptr(new CPipeHandle); @@ -16245,15 +16179,69 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/profile/rtprofile.cpp -o rtprofile.o -/bin/rm -f libutrtprof.so .libutrtprof.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libutrtprof.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC rtprofile.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libutrtprof.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libutrtprof.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libutrtprof.so -/bin/ln -f .utrtprof.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.utrtprof.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeinfo.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/interprocess_lock.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_process.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbithr.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeinfo.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stltypes.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypesimpl.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stltypes.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/hookdatakey.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/hookdata.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/hookdata.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CHookDataBase::CHookDataBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/hookdata.cpp:48:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/hookdata.hpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CHookDataBase::CHookDataBase()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/logging/message.cpp -o message.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/logging/listener.cpp -o listener.o +/bin/rm -f libxlogging.so .libxlogging.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxlogging.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC message.o listener.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxlogging.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxlogging.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxlogging.so +/bin/ln -f .xlogging.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xlogging.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' ++-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stltypes.cpp -o stltypes.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/memberid.cpp -o memberid.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/memberlist.cpp -o memberlist.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/item.cpp -o item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/classinfob.cpp -o classinfob.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/member.cpp -o member.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos_cxx.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -16370,17 +16358,94 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_session.cpp -o ncbi_http_session.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_lbos_cxx.cpp -o ncbi_lbos_cxx.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_monkey.cpp -o ncbi_monkey.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducibl+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stltypes.cpp -o stltypes.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/memberid.cpp -o memberid.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/memberlist.cpp -o memberlist.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/item.cpp -o item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/classinfob.cpp -o classinfob.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/member.cpp -o member.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] - 48 | eNcbiCred_MbedTls = 0xC12CC114 - | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:34: +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproduciblIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/classinfob.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/classinfob.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/member.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/member.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp: In static member function 'static void ncbi::CPrimitiveTypeFunctions::Skip(ncbi::CObjectIStream&, ncbi::TTypeInfo) [with T = long double]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp:147:23: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] + 147 | in.SkipStd(data); + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp:147:23: note: by argument 2 of type 'const long double&' to 'void (ncbi::CObjectIStream::)(const long double&)' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp:146:25: note: 'data' declared here + 146 | TObjectType data; + | ^~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/classinfob.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/choice.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/choice.cpp:33: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CReadChoiceVariantHook; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CReadChoiceVariantHook; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'void ncbi::CChoiceTypeInfo::SetGlobalHook(const ncbi::CTempString&, ncbi::CReadChoiceVariantHook*)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/choice.cpp:548:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::CChoiceTypeInfo::SetGlobalHook(const ncbi::CTempString&, ncbi::CReadChoiceVariantHook*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/profile/rtprofile.cpp -o rtprofile.o +/bin/rm -f libutrtprof.so .libutrtprof.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libutrtprof.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC rtprofile.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libutrtprof.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libutrtprof.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libutrtprof.so +/bin/ln -f .utrtprof.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.utrtprof.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/variant.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/variant.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimtx.hpp:64, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/classinfo.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CReadClassMemberHook; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CReadClassMemberHook; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'void ncbi::CClassTypeInfo::SetGlobalHook(const ncbi::CTempString&, ncbi::CReadClassMemberHook*)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/classinfo.cpp:556:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::CClassTypeInfo::SetGlobalHook(const ncbi::CTempString&, ncbi::CReadClassMemberHook*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] 48 | eNcbiCred_MbedTls = 0xC12CC114 | ^~~~~~~~~~ @@ -16426,6 +16491,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c:836:5: note: in expansion of macro 'CORE_LOG' 836 | CORE_LOG(eLOG_Warning, "Unavailable feature GNUTLS"); | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] + 48 | eNcbiCred_MbedTls = 0xC12CC114 + | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:91:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] @@ -16434,14 +16503,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_service.h:92:31: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ | ^~~~~~~~~~ -e-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_cxx.cpp -o ncbi_service_cxx.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_localip_cxx.cpp -o ncbi_localip_cxx.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_blowfish.c -o ncbi_blowfish.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_usage_report.cpp -o ncbi_usage_report.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connect_misc.cpp -o connect_misc.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c -o ncbi_gnutls.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c -o ncbi_mbedtls.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_priv.h:62, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c: In function 'x_MbedTlsLogger': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] @@ -16515,21 +16577,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:704:9: note: in expansion of macro 'CORE_LOGF' 704 | CORE_LOGF(level, ("%s V%s (LogLevel=%d)", | ^~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stltypes.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypesimpl.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stltypes.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c:34: +e-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_service_cxx.cpp -o ncbi_service_cxx.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_localip_cxx.cpp -o ncbi_localip_cxx.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_blowfish.c -o ncbi_blowfish.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_usage_report.cpp -o ncbi_usage_report.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connect_misc.cpp -o connect_misc.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c -o ncbi_gnutls.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c -o ncbi_mbedtls.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connssl.h:48:25: warning: ISO C restricts enumerator values to range of 'int' [-Wpedantic] 48 | eNcbiCred_MbedTls = 0xC12CC114 | ^~~~~~~~~~ @@ -16606,200 +16661,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c:97:13: note: in expansion of macro 'CORE_LOG' 97 | CORE_LOG(eLOG_Critical, "No TLS support included in this build"); | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=GENEINFO -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info.cpp -o gene_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=GENEINFO -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info_reader.cpp -o gene_info_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=GENEINFO -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/file_utils.cpp -o file_utils.o -/bin/rm -f libgene_info.so .libgene_info.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libgene_info.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC gene_info.o gene_info_reader.o file_utils.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgene_info.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libgene_info.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgene_info.so -/bin/ln -f .gene_info.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.gene_info.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -cd objtools/blast/gene_info_reader/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gene_info_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test TMPL=gene_info_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp: In static member function 'static void ncbi::CPrimitiveTypeFunctions::Skip(ncbi::CObjectIStream&, ncbi::TTypeInfo) [with T = long double]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp:147:23: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] - 147 | in.SkipStd(data); - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp:147:23: note: by argument 2 of type 'const long double&' to 'void (ncbi::CObjectIStream::)(const long double&)' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/stdtypes.cpp:146:25: note: 'data' declared here - 146 | TObjectType data; - | ^~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:31: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimtx.hpp:64, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/plugin_manager.hpp:70, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/plugin_manager_store.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp_cached.cpp:33: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CPluginManager; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CPluginManager; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::ICache* ncbi::CCgiApplicationCached::GetCacheStorage() const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp_cached.cpp:89:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual ncbi::ICache* ncbi::CCgiApplicationCached::GetCacheStorage() const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_url.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/ncbi_url.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgi_util.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/ncbicgi.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/impl/cgi_entry_reader.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_entry_reader.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CCgiEntry::SData; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CCgiEntry::SData; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CCgiEntry::~CCgiEntry()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/ncbicgi.hpp:412:24, - inlined from 'ncbi::TCgiEntriesI ncbi::CCgiEntryReaderContext::GetNextEntry()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgi_entry_reader.cpp:269:67: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::TCgiEntriesI ncbi::CCgiEntryReaderContext::GetNextEntry()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ --D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/components.cpp -o components.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/commentdiag.cpp -o commentdiag.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/indentstream.cpp -o indentstream.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/html_exception.cpp -o html_exception.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/writer_htmlenc.cpp -o writer_htmlenc.o -/bin/rm -f libxhtml.so .libxhtml.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxhtml.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC node.o html.o htmlhelper.o page.o pager.o selection.o components.o commentdiag.o indentstream.o html_exception.o writer_htmlenc.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxhtml.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxhtml.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxhtml.so -/bin/ln -f .xhtml.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xhtml.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/member.cpp:45: +ds/c++/src/serial/classinfo.cpp -o classinfo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/variant.cpp -o variant.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/choice.cpp -o choice.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/choiceptr.cpp -o choiceptr.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/aliasinfo.cpp -o aliasinfo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistr.cpp -o objistr.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostr.cpp -o objostr.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostr.cpp:62: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -16807,12 +16677,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/member.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostr.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/classinfob.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistr.cpp:62: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -16820,18 +16690,60 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/classinfob.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistr.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -ds/c++/src/serial/classinfo.cpp -o classinfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/variant.cpp -o variant.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/choice.cpp -o choice.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/choiceptr.cpp -o choiceptr.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/aliasinfo.cpp -o aliasinfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistr.cpp -o objistr.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostr.cpp -o objostr.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_safe_static.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbithr.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/node.cpp:32: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CNCBINode; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CNCBINode; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/new_allocator.h:181:13, + inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, + inlined from 'void std::__cxx11::_List_base<_Tp, _Alloc>::_M_clear() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/list.tcc:77:31, + inlined from 'std::__cxx11::_List_base<_Tp, _Alloc>::~_List_base() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:575:17, + inlined from 'std::__cxx11::list<_Tp, _Alloc>::~list() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:903:7, + inlined from 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = std::__cxx11::list >]' at /usr/include/c++/12/bits/unique_ptr.h:95:2: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = std::__cxx11::list >]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil.cpp -o sequtil.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_convert.cpp -o sequtil_convert.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_convert_imp.cpp -o sequtil_convert_imp.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_manip.cpp -o sequtil_manip.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_tables.cpp -o sequtil_tables.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/sequtil/sequtil_shared.cpp -o sequtil_shared.o +/bin/rm -f libsequtil.so .libsequtil.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libsequtil.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-piIn file included from /usr/include/string.h:535, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_ansi_ext.h:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:75: +In function 'memcpy', + inlined from 'x_tvcpy' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:2658:5, + inlined from 's_WritePending' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3676:9: +/usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:10: warning: '*(__int128 unsigned *)((char *)&wtv + offsetof(struct timeval, tv_sec))' may be used uninitialized [-Wmaybe-uninitialized] + 29 | return __builtin___memcpy_chk (__dest, __src, __len, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 30 | __glibc_objsize0 (__dest)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_WritePending': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c:3627:20: note: '*(__int128 unsigned *)((char *)&wtv + offsetof(struct timeval, tv_sec))' was declared here + 3627 | struct timeval wtv; + | ^~~ +e-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC sequtil.o sequtil_convert.o sequtil_convert_imp.o sequtil_manip.o sequtil_tables.o sequtil_shared.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libsequtil.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libsequtil.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libsequtil.so +/bin/ln -f .sequtil.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.sequtil.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info_reader.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -16839,11 +16751,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbithr_conf.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimtx.hpp:62, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbienv.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/env_reg.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info_reader.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -16865,47 +16777,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/variant.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/variant.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp: In member function 'void gene_info::s_MainInfoReaderTest::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:328:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 328 | auto_ptr fileReader1(pReader1); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:329:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 329 | auto_ptr fileReader2(pReader2); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp: In member function 'void gene_info::s_GiWithNoGeneIdTest::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:376:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 376 | auto_ptr fileReader1(pReader1); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:377:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 377 | auto_ptr fileReader2(pReader2); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistr.cpp:62: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objcopy.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -16913,43 +16787,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistr.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objcopy.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/classinfob.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/choice.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/choice.cpp:33: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CReadChoiceVariantHook; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CReadChoiceVariantHook; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'void ncbi::CChoiceTypeInfo::SetGlobalHook(const ncbi::CTempString&, ncbi::CReadChoiceVariantHook*)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/choice.cpp:548:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::CChoiceTypeInfo::SetGlobalHook(const ncbi::CTempString&, ncbi::CReadChoiceVariantHook*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimtx.hpp:64, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/classinfo.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CReadClassMemberHook; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CReadClassMemberHook; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'void ncbi::CClassTypeInfo::SetGlobalHook(const ncbi::CTempString&, ncbi::CReadClassMemberHook*)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/classinfo.cpp:556:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::CClassTypeInfo::SetGlobalHook(const ncbi::CTempString&, ncbi::CReadClassMemberHook*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostr.cpp:62: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeref.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -16957,7 +16800,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostr.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialdef.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/typeref.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/typeref.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -16969,7 +16814,7 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/exception.cpp -o exception.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objhook.cpp -o objhook.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objcopy.cpp:48: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serial.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -16977,11 +16822,18 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objcopy.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serial.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c -o ncbi_tls.o +strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objlist.cpp -o objlist.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objstack.cpp -o objstack.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrasn.cpp -o objostrasn.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrasn.cpp -o objistrasn.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrasnb.cpp -o objostrasnb.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrasnb.cpp -o objistrasnb.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrxml.cpp -o objostrxml.o +/usrreproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c -o ncbi_tls.o /bin/rm -f libxconnect.so .libxconnect.so.stamp /usr/bin/g++ -std=gnu++14 -shared -o libxconnect.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -Wl,--as-needed -fPIC ncbi_lbsmd_stub.o ncbi_ansi_ext.o ncbi_types.o ncbi_core.o ncbi_priv.o ncbi_util.o ncbi_buffer.o ncbi_socket.o ncbi_connector.o ncbi_connection.o ncbi_connutil.o ncbi_ipv6.o ncbi_server_info.o ncbi_host_info.o ncbi_service.o ncbi_sendmail.o ncbi_base64.o ncbi_heapmgr.o ncbi_lb.o ncbi_socket_connector.o ncbi_file_connector.o ncbi_http_connector.o ncbi_memory_connector.o ncbi_service_connector.o ncbi_ftp_connector.o ncbi_version.o ncbi_iprange.o ncbi_local.o ncbi_dispd.o ncbi_lbos.o ncbi_linkerd.o ncbi_namerd.o parson.o ncbi_localip.o ncbi_socket_cxx.o ncbi_core_cxx.o email_diag_handler.o ncbi_conn_streambuf.o ncbi_conn_stream.o ncbi_conn_test.o ncbi_misc.o ncbi_namedpipe.o ncbi_namedpipe_connector.o ncbi_pipe.o ncbi_pipe_connector.o ncbi_conn_reader_writer.o ncbi_userhost.o ncbi_http_session.o ncbi_lbos_cxx.o ncbi_monkey.o ncbi_service_cxx.o ncbi_localip_cxx.o ncbi_blowfish.o ncbi_usage_report.o connect_misc.o ncbi_gnutls.o ncbi_mbedtls.o ncbi_tls.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxncbi -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxconnect.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib @@ -16990,38 +16842,25 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' cd algo/blast/core/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast UNIX_PROJ="" sources= configurables=configurables.null -cd connect/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xthrserv UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +cd connect/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xthrserv UNIX_PROJ="" sources= configurables=configurables.null make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core TMPL=blast -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect TMPL=xthrserv -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core TMPL=blast -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serial.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serial.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' @@ -17071,7 +16910,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_aascan.c:575:33: warning: ISO C forbids conversion of function pointer to object pointer type [-Wpedantic] 575 | lut->scansub_callback = (void *)s_BlastCompressedAaScanSubject; | ^ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nalookup.c: In function 'BlastNaHashLookupTableNew': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nalookup.c:2236:27: warning: ISO C forbids assignment between function pointer and 'void *' [-Wpedantic] 2236 | lookup->hash_callback = FNV_hash; @@ -17084,6 +16922,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/core/blast_lookup.h:181:66: note: expected 'TNaLookupHashFunction' {aka 'unsigned int (*)(unsigned char *, unsigned int)'} but argument is of type 'void *' 181 | TNaLookupHashFunction hash_func, | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=GENEINFO -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info.cpp -o gene_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=GENEINFO -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/gene_info_reader.cpp -o gene_info_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=GENEINFO -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/file_utils.cpp -o file_utils.o +/bin/rm -f libgene_info.so .libgene_info.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libgene_info.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC gene_info.o gene_info_reader.o file_utils.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgene_info.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libgene_info.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgene_info.so +/bin/ln -f .gene_info.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.gene_info.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c: In function 's_NaChooseScanSubject': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c:291:36: warning: ISO C forbids conversion of function pointer to object pointer type [-Wpedantic] 291 | lookup->scansub_callback = (void *)s_BlastNaScanSubject_8_4; @@ -17125,6 +16973,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c:1349:40: warning: ISO C forbids conversion of function pointer to object pointer type [-Wpedantic] 1349 | lookup->scansub_callback = (void *)s_BlastSmallNaScanSubject_Any; | ^ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c:1354:40: warning: ISO C forbids conversion of function pointer to object pointer type [-Wpedantic] 1354 | lookup->scansub_callback = (void *)s_BlastSmallNaScanSubject_8_4; | ^ @@ -17210,24 +17059,26 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c:3006:12: warning: ISO C forbids conversion of function pointer to object pointer type [-Wpedantic] 3006 | return (void *)s_MBScanSubject_Any; | ^ -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/user_agent.cpp -o user_agent.o -/bin/rm -f libxcgi.so .libxcgi.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxcgi.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC ncbicgi.o cgiapp.o cgictx.o ncbicgir.o ncbires.o ref_args.o cgi_run.o cgi_util.o cgi_serial.o cgi_session.o cgi_exception.o cgiapp_cached.o cgi_entry_reader.o user_agent.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxcgi.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxcgi.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxcgi.so -/bin/ln -f .xcgi.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xcgi.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +cd objtools/blast/gene_info_reader/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gene_info_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_aascan.c -o blast_aascan.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nalookup.c -o blast_nalookup.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_nascan.c -o blast_nascan.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_message.c -o blast_message.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_options.c -o blast_options.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_psi.c -o blast_psi.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c: In function 's_IsSeedMasked': +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -Dmake[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c: In function 's_IsSeedMasked': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c:488:15: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 488 | return !(((T_Lookup_Callback)(lookup_wrap->lookup_callback)) | ^ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c: In function 'BlastNaWordFinder': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c:1622:19: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 1622 | scansub = (TNaScanSubjectFunction)lookup->scansub_callback; @@ -17310,6 +17161,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c:2014:23: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 2014 | scansub = (TNaScanSubjectFunction) | ^ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test TMPL=gene_info_unit_test -w -j12 --jobserver-auth=7,8 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c: In function 'ShortRead_IndexedWordFinder': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c:2188:9: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 2188 | (T_MB_IdbCheckOid)lookup_wrap->check_index_oid; @@ -17317,6 +17169,117 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c:2190:25: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 2190 | (T_MB_IdbGetResults)lookup_wrap->read_indexed_db; | ^ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ _FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/na_ungapped.c -o na_ungapped.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_psi_priv.c -o blast_psi_priv.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_seg.c -o blast_seg.o @@ -17330,6 +17293,26 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_util.c:309:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 309 | return 0; | ^~~~~~ +-D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/components.cpp -o components.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/commentdiag.cpp -o commentdiag.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/indentstream.cpp -o indentstream.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/html_exception.cpp -o html_exception.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/html/writer_htmlenc.cpp -o writer_htmlenc.o +/bin/rm -f libxhtml.so .libxhtml.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxhtml.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC node.o html.o htmlhelper.o page.o pager.o selection.o components.o commentdiag.o indentstream.o html_exception.o writer_htmlenc.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxhtml.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxhtml.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxhtml.so +/bin/ln -f .xhtml.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xhtml.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/user_agent.cpp -o user_agent.o +/bin/rm -f libxcgi.so .libxcgi.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxcgi.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC ncbicgi.o cgiapp.o cgictx.o ncbicgir.o ncbires.o ref_args.o cgi_run.o cgi_util.o cgi_serial.o cgi_session.o cgi_exception.o cgiapp_cached.o cgi_entry_reader.o user_agent.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxcgi.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxcgi.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxcgi.so +/bin/ln -f .xcgi.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xcgi.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_traceback.c -o blast_traceback.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_util.c -o blast_util.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/gapinfo.c -o gapinfo.o @@ -17337,21 +17320,7 @@ /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/hspfilter_collector.c -o hspfilter_collector.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/hspfilter_besthit.c -o hspfilter_besthit.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/hspfilter_culling.c -o hspfilter_culling.o -/usr/bin/gcc -std=gnu11 -fgnu89-i/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c: In function 's_FwdCompareHSPs': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c:133:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 133 | if (h1->context > h2->context) - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c:136:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 136 | if (h1->query.offset < h2->query.offset) - | ^~ -strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objlist.cpp -o objlist.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objstack.cpp -o objstack.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrasn.cpp -o objostrasn.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrasn.cpp -o objistrasn.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrasnb.cpp -o objostrasnb.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrasnb.cpp -o objistrasnb.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrxml.cpp -o objostrxml.o -/usr/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server_monitor.cpp: In member function 'void ncbi::CServer_Monitor::SetSocket(ncbi::CSocket&)': +/usr/bin/gcc -std=gnu11 -fgnu89-i/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server_monitor.cpp: In member function 'void ncbi::CServer_Monitor::SetSocket(ncbi::CSocket&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server_monitor.cpp:56:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 56 | auto_ptr s(new CSocket()); | ^~~~~~~~ @@ -17366,25 +17335,14 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -nline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c -o link_hsps.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/lookup_util.c -o lookup_util.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/lookup_wrap.c -o lookup_wrap.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/matrix_freq_ratios.c -o matrix_freq_ratios.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/ncbi_std.c -o ncbi_std.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/ncbi_math.c -o ncbi_math.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_encoding.c -o blast_encoding.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/pattern.c -o pattern.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_extend.c -o phi_extend.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_gapalign.c -o phi_gapalign.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_lookup.c -o phi_lookup.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_parameters.c -o blast_parameters.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_posit.c -o blast_posit.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_program.c -o blast_program.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_query_info.c -o blast_query_info.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_tune.c -o blast_tune.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_sw.c -o blast_sw.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_dynarray.c -o blast_dynarray.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.hpp:37, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c: In function 's_FwdCompareHSPs': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c:133:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 133 | if (h1->context > h2->context) + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c:136:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 136 | if (h1->query.offset < h2->query.offset) + | ^~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/impl/server_connection.hpp:113:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 113 | auto_ptr m_Handler; @@ -17405,14 +17363,38 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_lookup.c: In function 'SPHIPatternSearchBlkNew': +nline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/link_hsps.c -o link_hsps.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/lookup_util.c -o lookup_util.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/lookup_wrap.c -o lookup_wrap.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/matrix_freq_ratios.c -o matrix_freq_ratios.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/ncbi_std.c -o ncbi_std.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/ncbi_math.c -o ncbi_math.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_encoding.c -o blast_encoding.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/pattern.c -o pattern.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_extend.c -o phi_extend.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_gapalign.c -o phi_gapalign.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_lookup.c -o phi_lookup.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_parameters.c -o blast_parameters.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SO/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrxml.cpp -o objistrxml.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrjson.cpp -o objostrjson.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrjson.cpp -o objistrjson.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serializable.cpp -o serializable.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serialobject.cpp -o serialobject.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/pathhook.cpp -o pathhook.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/bui/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_lookup.c: In function 'SPHIPatternSearchBlkNew': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_lookup.c:634:30: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 634 | localPattern[posIndex-1] = 1; | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/phi_lookup.c:411:11: note: at offset -1 into destination object 'localPattern' of size 330 411 | Uint1 localPattern[PHI_MAX_PATTERN_LENGTH]; /*local variable to hold for each position whether | ^~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/threaded_server.cpp:47:54: warning: 'CThreadedServer' is deprecated [-Wdeprecated-declarations] +URCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_posit.c -o blast_posit.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_program.c -o blast_program.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_query_info.c -o blast_query_info.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_tune.c -o blast_tune.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_sw.c -o blast_sw.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_dynarray.c -o blast_dynarray.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/threaded_server.cpp:47:54: warning: 'CThreadedServer' is deprecated [-Wdeprecated-declarations] 47 | CSocketRequest(CThreadedServer& server, SOCK sock) // NCBI_FAKE_WARNING | ^ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/threaded_server.cpp:33: @@ -17432,7 +17414,41 @@ /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_hspstream_mt_utils.c -o blast_hspstream_mt_utils.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/boost_erf.c -o boost_erf.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/jumper.c -o jumper.o -/usr/bin/gcc -std=gnIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.hpp:37, +/usr/bin/gcc -std=gnIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/impl/server_connection.hpp:113:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 113 | auto_ptr m_Handler; @@ -17463,19 +17479,32 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrxml.cpp -o objistrxml.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objostrjson.cpp -o objostrjson.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/objistrjson.cpp -o objistrjson.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serializable.cpp -o serializable.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/serialobject.cpp -o serialobject.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/pathhook.cpp -o pathhook.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/buimake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=gene_info_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp -o gene_info_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie gene_info_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lgene_info -lxncbi -lm -lpthread -o gene_info_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gene_info_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f gene_info_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gene_info_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp: In member function 'void gene_info::s_MainInfoReaderTest::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:328:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 328 | auto_ptr fileReader1(pReader1); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:329:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 329 | auto_ptr fileReader2(pReader2); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp: In member function 'void gene_info::s_GiWithNoGeneIdTest::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:376:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 376 | auto_ptr fileReader1(pReader1); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:377:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 377 | auto_ptr fileReader2(pReader2); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ u11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/hspfilter_mapper.c -o hspfilter_mapper.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/spliced_hits.c -o spliced_hits.o /bin/rm -f libblast.so .libblast.so.stamp @@ -17515,18 +17544,9 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_client.cpp -o grid_client.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_client_app.cpp -o grid_client_app.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_commit_thread.cpp -o wn_commit_thread.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.spey -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/lzo.cpp -o lzo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/reader_zlib.cpp -o reader_zlib.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/tar.cpp -o tar.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/archive.cpp -o archive.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/archive_.cpp -o archive_.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/archive_zip.cpp -o archive_zip.o -/bin/rm -f libxcompress.so .libxcompress.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxcompress.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC compress.o stream.o streambuf.o stream_util.o bzip2.o zlib.o lzo.o reader_zlib.o tar.o archive.o archive_.o archive_zip.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxutil -lxncbi -lbz2 -lz -lm -lpthread In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_worker_impl.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_worker_app.cpp:34: +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.speIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_client_app.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_client_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -17635,46 +17655,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:89:75: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 89 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:89:51: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 89 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:93:75: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 93 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:93:51: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 93 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_worker_impl.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_commit_thread.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -17969,8 +17954,9 @@ 93 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_client_app.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_client_app.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_main_loop.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -18079,10 +18065,47 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:89:75: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 89 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:89:51: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 89 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:93:75: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 93 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:93:51: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 93 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_main_loop.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_worker_impl.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_control_thread.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -18230,8 +18253,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_worker_impl.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_commit_thread.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_offline_mode.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -18380,7 +18402,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_worker_impl.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_control_thread.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_worker_app.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -18435,6 +18457,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -18453,9 +18482,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -18468,12 +18494,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -18486,12 +18515,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:89:75: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 89 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -18504,12 +18530,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:89:51: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 89 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:93:75: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 93 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -18522,16 +18551,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:93:51: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 93 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_offline_mode.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -18544,12 +18569,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -18562,12 +18584,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:89:75: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 89 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -18580,12 +18605,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:89:51: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 89 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -18598,12 +18620,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:93:75: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 93 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -18616,9 +18638,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:93:51: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 93 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -18673,37 +18695,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:93:51: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 93 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ - -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxcompress.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxcompress.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxcompress.so -/bin/ln -f .xcompress.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xcompress.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -cs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_main_loop.cpp -o wn_main_loop.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.cpp -o wn_cleanup.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_offline_mode.cpp -o wn_offline_mode.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_control_thread.cpp -o grid_control_thread.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_globals.cpp -o grid_globals.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_rw_impl.cpp -o grid_rw_impl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-bIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/netcomponent.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/compound_id.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/netschedule_key.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/netschedule_api.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:42: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CGridCleanupThread; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CGridCleanupThread; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'int ncbi::SGridWorkerNodeImpl::x_WNCleanUp()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.cpp:131:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'int ncbi::SGridWorkerNodeImpl::x_WNCleanUp()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=gene_info_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp -o gene_info_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie gene_info_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lgene_info -lxncbi -lm -lpthread -o gene_info_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gene_info_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f gene_info_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gene_info_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' ld/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/rpcbase.cpp -o rpcbase.o /bin/rm -f libxser.so .libxser.so.stamp /usr/bin/g++ -std=gnu++14 -shared -o libxser.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC hookdata.o hookdatakey.o typeinfo.o objectinfo.o objectiter.o objectio.o typeref.o typemap.o stdtypes.o enumerated.o ptrinfo.o autoptrinfo.o continfo.o stltypes.o memberid.o memberlist.o item.o classinfob.o member.o classinfo.o variant.o choice.o choiceptr.o aliasinfo.o objistr.o objostr.o objcopy.o iterator.o serial.o delaybuf.o pack_string.o exception.o objhook.o objlist.o objstack.o objostrasn.o objistrasn.o objostrasnb.o objistrasnb.o objostrxml.o objistrxml.o objostrjson.o objistrjson.o serializable.o serialobject.o pathhook.o rpcbase.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxutil -lxncbi -lm -lpthread @@ -18715,7 +18713,13 @@ cd serial/datatool/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=datatool LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' +cs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_main_loop.cpp -o wn_main_loop.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.cpp -o wn_cleanup.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_offline_mode.cpp -o wn_offline_mode.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_control_thread.cpp -o grid_control_thread.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_globals.cpp -o grid_globals.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_rw_impl.cpp -o grid_rw_impl.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-bmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' @@ -18730,7 +18734,26 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/statictype.cpp -o statictype.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/enumtype.cpp -o enumtype.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/reftype.cpp -o reftype.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/netcomponent.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/compound_id.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/netschedule_key.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/netschedule_api.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:42: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CGridCleanupThread; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CGridCleanupThread; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'int ncbi::SGridWorkerNodeImpl::x_WNCleanUp()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.cpp:131:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'int ncbi::SGridWorkerNodeImpl::x_WNCleanUp()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/datatool.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/type.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -18952,14 +18975,20 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -last+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/remote_app.cpp -o remote_app.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/srv_connections.cpp -o srv_connections.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api.cpp -o netservice_api.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_params.cpp -o netservice_params.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api.cpp -o netschedule_api.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_submitter.cpp -o netschedule_api_submitter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_executor.cpp -o netschedule_api_executor.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducibreproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/unitype.cpp -o unitype.o +y -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/lzo.cpp -o lzo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/reader_zlib.cpp -o reader_zlib.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/tar.cpp -o tar.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/archive.cpp -o archive.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/archive_.cpp -o archive_.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/util/compress/api/archive_zip.cpp -o archive_zip.o +/bin/rm -f libxcompress.so .libxcompress.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxcompress.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC compress.o stream.o streambuf.o stream_util.o bzip2.o zlib.o lzo.o reader_zlib.o tar.o archive.o archive_.o archive_zip.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxutil -lxncbi -lbz2 -lz -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxcompress.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxcompress.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxcompress.so +/bin/ln -f .xcompress.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xcompress.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/unitype.cpp -o unitype.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/blocktype.cpp -o blocktype.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/choicetype.cpp -o choicetype.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/typestr.cpp -o typestr.o @@ -19076,7 +19105,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +last+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/remote_app.cpp -o remote_app.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/srv_connections.cpp -o srv_connections.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api.cpp -o netservice_api.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_params.cpp -o netservice_params.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api.cpp -o netschedule_api.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_submitter.cpp -o netschedule_api_submitter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_executor.cpp -o netschedule_api_executor.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducibIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/grid_worker_app.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/wn_cleanup.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/grid_worker_impl.hpp:37, @@ -19493,59 +19529,7 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/choicestr.cpp -o choicestr.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/choiceptrstr.cpp -o choiceptrstr.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/value.cpp -o value.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_params.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/srv_connections_impl.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api_impl.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/srv_connections.cpp:34: -In member function 'void ncbi::CObject::AddReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, - inlined from 'void ncbi::CNetComponentCounterLocker::Lock(const S*) const [with S = ncbi::SNetServerImpl]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/netcomponent.hpp:56:35, - inlined from 'void ncbi::CRef::x_LockFromPtr() [with C = ncbi::SNetServerImpl; Locker = ncbi::CNetComponentCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1197:36, - inlined from 'ncbi::CRef::CRef(TObjectType*) [with C = ncbi::SNetServerImpl; Locker = ncbi::CNetComponentCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:648:26, - inlined from 'ncbi::CNetServer::CNetServer(ncbi::SNetServerImpl*)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/srv_connections.hpp:101:5, - inlined from 'ncbi::CNetServer::SExecResult ncbi::SNetServerImpl::ConnectAndExec(const std::string&, bool, bool)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/srv_connections.cpp:817:31: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 494 | CheckReferenceOverflow(newCount - eCounterStep); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CNetServer::SExecResult ncbi::SNetServerImpl::ConnectAndExec(const std::string&, bool, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_params.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/srv_connections_impl.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api_impl.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api.cpp:37: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CNetComponentCounterLocker::Unlock(const S*) const [with S = ncbi::SNetServiceImpl]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/netcomponent.hpp:66:37, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::SNetServiceImpl; Locker = ncbi::CNetComponentCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::SNetServiceImpl; Locker = ncbi::CNetComponentCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::SNoRetry::~SNoRetry()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api.cpp:78:5, - inlined from 'ncbi::SNoRetryNoErrors::SNoRetryNoErrors(ncbi::SNetServiceImpl*)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api.cpp:93:5, - inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = ncbi::SNoRetryNoErrors; _Args = {ncbi::SNetServiceImpl*}]' at /usr/include/c++/12/bits/stl_construct.h:119:7, - inlined from 'static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = ncbi::SNoRetryNoErrors; _Args = {ncbi::SNetServiceImpl*}]' at /usr/include/c++/12/bits/alloc_traits.h:635:19, - inlined from 'std::_Sp_counted_ptr_inplace<_Tp, _Alloc, _Lp>::_Sp_counted_ptr_inplace(_Alloc, _Args&& ...) [with _Args = {ncbi::SNetServiceImpl*}; _Tp = ncbi::SNoRetryNoErrors; _Alloc = std::allocator; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' at /usr/include/c++/12/bits/shared_ptr_base.h:604:39, - inlined from 'std::__shared_count<_Lp>::__shared_count(_Tp*&, std::_Sp_alloc_shared_tag<_Alloc>, _Args&& ...) [with _Tp = ncbi::SNoRetryNoErrors; _Alloc = std::allocator; _Args = {ncbi::SNetServiceImpl*}; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' at /usr/include/c++/12/bits/shared_ptr_base.h:971:16, - inlined from 'std::__shared_ptr<_Tp, _Lp>::__shared_ptr(std::_Sp_alloc_shared_tag<_Tp>, _Args&& ...) [with _Alloc = std::allocator; _Args = {ncbi::SNetServiceImpl*}; _Tp = ncbi::SNoRetryNoErrors; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' at /usr/include/c++/12/bits/shared_ptr_base.h:1712:14, - inlined from 'std::shared_ptr<_Tp>::shared_ptr(std::_Sp_alloc_shared_tag<_Tp>, _Args&& ...) [with _Alloc = std::allocator; _Args = {ncbi::SNetServiceImpl*}; _Tp = ncbi::SNoRetryNoErrors]' at /usr/include/c++/12/bits/shared_ptr.h:464:59, - inlined from 'std::shared_ptr >::value), _Tp>::type> std::make_shared(_Args&& ...) [with _Tp = ncbi::SNoRetryNoErrors; _Args = {ncbi::SNetServiceImpl*}]' at /usr/include/c++/12/bits/shared_ptr.h:1010:39, - inlined from 'std::shared_ptr ncbi::SNetServiceImpl::CreateRetryGuard(SRetry::EType)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api.cpp:1203:76: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'std::shared_ptr ncbi::SNetServiceImpl::CreateRetryGuard(SRetry::EType)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/moduleset.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) @@ -19655,20 +19639,72 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -le-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_reader.cpp -o netschedule_api_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_admin.cpp -o netschedule_api_admin.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_getjob.cpp -o netschedule_api_getjob.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_key.cpp -o netschedule_key.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_expt.cpp -o netschedule_api_expt.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netcache_key.cpp -o netcache_key.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOAPP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/mcontainer.cpp -o mcontainer.o +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_params.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/srv_connections_impl.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api_impl.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api.cpp:37: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CNetComponentCounterLocker::Unlock(const S*) const [with S = ncbi::SNetServiceImpl]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/netcomponent.hpp:66:37, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::SNetServiceImpl; Locker = ncbi::CNetComponentCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::SNetServiceImpl; Locker = ncbi::CNetComponentCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::SNoRetry::~SNoRetry()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api.cpp:78:5, + inlined from 'ncbi::SNoRetryNoErrors::SNoRetryNoErrors(ncbi::SNetServiceImpl*)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api.cpp:93:5, + inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = ncbi::SNoRetryNoErrors; _Args = {ncbi::SNetServiceImpl*}]' at /usr/include/c++/12/bits/stl_construct.h:119:7, + inlined from 'static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = ncbi::SNoRetryNoErrors; _Args = {ncbi::SNetServiceImpl*}]' at /usr/include/c++/12/bits/alloc_traits.h:635:19, + inlined from 'std::_Sp_counted_ptr_inplace<_Tp, _Alloc, _Lp>::_Sp_counted_ptr_inplace(_Alloc, _Args&& ...) [with _Args = {ncbi::SNetServiceImpl*}; _Tp = ncbi::SNoRetryNoErrors; _Alloc = std::allocator; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' at /usr/include/c++/12/bits/shared_ptr_base.h:604:39, + inlined from 'std::__shared_count<_Lp>::__shared_count(_Tp*&, std::_Sp_alloc_shared_tag<_Alloc>, _Args&& ...) [with _Tp = ncbi::SNoRetryNoErrors; _Alloc = std::allocator; _Args = {ncbi::SNetServiceImpl*}; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' at /usr/include/c++/12/bits/shared_ptr_base.h:971:16, + inlined from 'std::__shared_ptr<_Tp, _Lp>::__shared_ptr(std::_Sp_alloc_shared_tag<_Tp>, _Args&& ...) [with _Alloc = std::allocator; _Args = {ncbi::SNetServiceImpl*}; _Tp = ncbi::SNoRetryNoErrors; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' at /usr/include/c++/12/bits/shared_ptr_base.h:1712:14, + inlined from 'std::shared_ptr<_Tp>::shared_ptr(std::_Sp_alloc_shared_tag<_Tp>, _Args&& ...) [with _Alloc = std::allocator; _Args = {ncbi::SNetServiceImpl*}; _Tp = ncbi::SNoRetryNoErrors]' at /usr/include/c++/12/bits/shared_ptr.h:464:59, + inlined from 'std::shared_ptr >::value), _Tp>::type> std::make_shared(_Args&& ...) [with _Tp = ncbi::SNoRetryNoErrors; _Args = {ncbi::SNetServiceImpl*}]' at /usr/include/c++/12/bits/shared_ptr.h:1010:39, + inlined from 'std::shared_ptr ncbi::SNetServiceImpl::CreateRetryGuard(SRetry::EType)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api.cpp:1203:76: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'std::shared_ptr ncbi::SNetServiceImpl::CreateRetryGuard(SRetry::EType)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/mcontainer.cpp -o mcontainer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/module.cpp -o module.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/moduleset.cpp -o moduleset.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/generate.cpp -o generate.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/filecode.cpp -o filecode.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/code.cpp -o code.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/fileutil.cpp -o fileutil.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-mURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netcache_rw.cpp -o netcache_rw.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-mIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_params.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/srv_connections_impl.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netservice_api_impl.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/srv_connections.cpp:34: +In member function 'void ncbi::CObject::AddReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, + inlined from 'void ncbi::CNetComponentCounterLocker::Lock(const S*) const [with S = ncbi::SNetServerImpl]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/netcomponent.hpp:56:35, + inlined from 'void ncbi::CRef::x_LockFromPtr() [with C = ncbi::SNetServerImpl; Locker = ncbi::CNetComponentCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1197:36, + inlined from 'ncbi::CRef::CRef(TObjectType*) [with C = ncbi::SNetServerImpl; Locker = ncbi::CNetComponentCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:648:26, + inlined from 'ncbi::CNetServer::CNetServer(ncbi::SNetServerImpl*)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/services/srv_connections.hpp:101:5, + inlined from 'ncbi::CNetServer::SExecResult ncbi::SNetServerImpl::ConnectAndExec(const std::string&, bool, bool)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/srv_connections.cpp:817:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 494 | CheckReferenceOverflow(newCount - eCounterStep); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CNetServer::SExecResult ncbi::SNetServerImpl::ConnectAndExec(const std::string&, bool, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +le-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_reader.cpp -o netschedule_api_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_admin.cpp -o netschedule_api_admin.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_getjob.cpp -o netschedule_api_getjob.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_key.cpp -o netschedule_key.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_expt.cpp -o netschedule_api_expt.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netcache_key.cpp -o netcache_key.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netcache_rw.cpp -o netcache_rw.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netcache_params.cpp -o netcache_params.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netcache_api.cpp -o netcache_api.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netcache_api_admin.cpp -o netcache_api_admin.o @@ -19681,13 +19717,7 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/lexer.cpp -o lexer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/exceptions.cpp -o exceptions.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/comments.cpp -o comments.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARG-std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/clparser.cpp -o clparser.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/json_over_uttp.cpp -o json_over_uttp.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage.cpp -o netstorage.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_rpc.cpp -o netstorage_rpc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorageobjectloc.cpp -o netstorageobjectloc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorageobjectinfo.cpp -o netstorageobjectinfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_EFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/srcutil.cpp -o srcutil.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/srcutil.cpp -o srcutil.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/dtdaux.cpp -o dtdaux.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/dtdlexer.cpp -o dtdlexer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/dtdparser.cpp -o dtdparser.o @@ -19915,7 +19945,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +-std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/clparser.cpp -o clparser.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/json_over_uttp.cpp -o json_over_uttp.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage.cpp -o netstorage.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_rpc.cpp -o netstorage_rpc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorageobjectloc.cpp -o netstorageobjectloc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorageobjectinfo.cpp -o netstorageobjectinfo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/datatool.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/wsdlparser.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -20090,18 +20126,18 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/compound_id_v0.cpp -o compound_id_v0.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netschedule_api_wn_info.cpp -o netschedule_api_wn_info.o /bin/rm -f libxconnserv.so .libxconnserv.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxconnserv.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC grid_worker.o ns_client_factory.o grid_worker_app.o grid_client.o grid_client_app.o wn_commit_thread.o wn_main_loop.o wn_cleanup.o wn_offline_mode.o grid_control_thread.o grid_globals.o grid_rw_impl.o remote_app.o srv_connections.o netservice_api.o netservice_params.o netschile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_pattern_match_callback.cpp -o traversal_pattern_match_callback.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_code_generator.cpp -o traversal_code_generator.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_merger.cpp -o traversal_merger.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_node.cpp -o traversal_node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_spec_file_parser.cpp -o traversal_spec_file_parser.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie datatool.o type.o namespace.o statictype.o enumtype.o reftype.o unitype.o blocktype.o choicetype.o typestr.o ptrstr.o stdstr.o classstr.o enumstr.o stlstr.o choicestr.o choiceptrstr.o value.o mcontainer.o module.o moduleset.o generate.o filecode.o code.o fileutil.o alexer.o aparser.o parser.o lexer.o exceptions.o comments.o srcutil.o dtdaux.o dtdlexer.o dtdparser.o rpcgen.o aliasstr.o xsdlexer.o xsdparser.o wsdllexer.o wsdlparser.o wsdlstr.o jsdlexer.o jsdparser.o traversal_pattern_match_callback.o traversal_code_generator.o traversal_merger.o traversal_node.o tedule_api.o netschedule_api_submitter.o netschedule_api_executor.o netschedule_api_reader.o netschedule_api_admin.o netschedule_api_getjob.o netschedule_key.o netschedule_api_expt.o netcache_key.o netcache_rw.o netcache_params.o netcache_api.o netcache_api_admin.o netcache_search.o netservice_protocol_parser.o util.o clparser.o json_over_uttp.o netstorage.o netstorage_rpc.o netstorageobjectloc.o netstorageobjectinfo.o netstorage_direct_nc.o ns_output_parser.o ns_job_serializer.o compound_id.o compound_id_v0.o netschedule_api_wn_info.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxthrserv -lxconnect -lxutil -lxncbi -lmbedtls -lmbedx509 -lmbedcrypto -lz +/usr/bin/g++ -std=gnu++14 -shared -o libxconnserv.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC grid_worker.o ns_client_factory.o grid_worker_app.o grid_client.o grid_client_app.o wn_commit_thread.o wn_main_loop.o wn_cleanup.o wn_offline_mode.o grid_control_thread.o grid_globals.o grid_rw_impl.o remote_app.o srv_connections.o netservice_api.o netservice_params.o netschedule_api.o netschedule_api_submitter.o netschedule_api_executor.o netschedule_api_reader.o netschedule_api_admin.o netschedule_api_getjob.o netschedule_key.o netschedule_api_expt.o netcache_key.o netcache_rw.o netcache_params.o netcache_api.o netcache_api_admin.o netcache_search.o netservice_protocol_parser.o util.o clparser.o json_over_uttp.o netstorage.o netstorage_rpc.o netstorageobjectloc.o netstorageobjectinfo.o netstorage_direct_nc.o ns_output_parser.o ns_job_serializer.o compound_id.o compound_id_v0.o netschedule_api_wn_info.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxthrserv -lxconnect -lxutil -lxncbi -lmbedtls -lmbedx509 -lmbedcrypto -lz /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxconnserv.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib /bin/ln -f libxconnserv.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxconnserv.so /bin/ln -f .xconnserv.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xconnserv.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -raversal_spec_file_parser.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxutil -lxncbi -lm -lpthread -o datatool +ile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_pattern_match_callback.cpp -o traversal_pattern_match_callback.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_code_generator.cpp -o traversal_code_generator.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_merger.cpp -o traversal_merger.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_node.cpp -o traversal_node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/traversal_spec_file_parser.cpp -o traversal_spec_file_parser.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie datatool.o type.o namespace.o statictype.o enumtype.o reftype.o unitype.o blocktype.o choicetype.o typestr.o ptrstr.o stdstr.o classstr.o enumstr.o stlstr.o choicestr.o choiceptrstr.o value.o mcontainer.o module.o moduleset.o generate.o filecode.o code.o fileutil.o alexer.o aparser.o parser.o lexer.o exceptions.o comments.o srcutil.o dtdaux.o dtdlexer.o dtdparser.o rpcgen.o aliasstr.o xsdlexer.o xsdparser.o wsdllexer.o wsdlparser.o wsdlstr.o jsdlexer.o jsdparser.o traversal_pattern_match_callback.o traversal_code_generator.o traversal_merger.o traversal_node.o traversal_spec_file_parser.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxutil -lxncbi -lm -lpthread -o datatool /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' @@ -20111,49 +20147,49 @@ make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objects/medline/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd objects/pub/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objects/seqcode/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh general all -cd objects/seq/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd objects/pub/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objects/seqcode/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objects/seq/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh medline all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh general all cd objects/seqset/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -cd objects/scoremat/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh pub all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh biblio all +cd objects/scoremat/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seqcode all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh biblio all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh pub all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh medline all cd objects/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objects/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seqcode all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh scoremat all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objects/genomecoll/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objects/genomecoll/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd objects/seqedit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seqset all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objects/seqedit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blastdb all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh genome_collection all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh scoremat all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh genome_collection all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blastdb all cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blast all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seqedit all make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' make[6]: warning: -j12 forced in submake: resetting jobserver mode. @@ -20162,58 +20198,28 @@ make[6]: warning: -j12 forced in submake: resetting jobserver mode. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/Makefile.sources builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -w -j12 --jobserver-auth=9,10 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[6]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=general MODULE_PATH=objects/general MODULE_ASN=general.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m general.asn -M "" -oA \ - -oc general -or objects/general -odi -od general.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd general.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.general.lib): Nothing to be done for `export-headers'. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=biblio MODULE_PATH=objects/biblio MODULE_ASN=biblio.asn MODULE_IMPORT='objects/general/general' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn' IMPFILES='objects/general/general.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=medline MODULE_PATH=objects/medline MODULE_ASN=medline.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m biblio.asn -M "objects/general/general.asn" -oA \ - -oc biblio -or objects/biblio -odi -od biblio.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd biblio.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m medline.asn -M "objects/general/general.asn objects/biblio/biblio.asn" -oA \ + -oc medline -or objects/medline -odi -od medline.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd medline.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blastdb MODULE_PATH=objects/blastdb MODULE_ASN=blastdb.asn MODULE_IMPORT='objects/seqloc/seqloc' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn' IMPFILES='objects/seqloc/seqloc.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m blastdb.asn -M "objects/seqloc/seqloc.asn" -oA \ - -oc blastdb -or objects/blastdb -odi -od blastdb.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd blastdb.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqcode MODULE_PATH=objects/seqcode MODULE_ASN=seqcode.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -20223,14 +20229,25 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' +/usr/bin/make[4] (Makefile.medline.lib): Nothing to be done for `export-headers'. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +/usr/bin/make[4] (Makefile.seqcode.lib): Nothing to be done for `export-headers'. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=pub MODULE_PATH=objects/pub MODULE_ASN=pub.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/medline/medline' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -20240,10 +20257,42 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blastdb MODULE_PATH=objects/blastdb MODULE_ASN=blastdb.asn MODULE_IMPORT='objects/seqloc/seqloc' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn' IMPFILES='objects/seqloc/seqloc.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m blastdb.asn -M "objects/seqloc/seqloc.asn" -oA \ + -oc blastdb -or objects/blastdb -odi -od blastdb.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd blastdb.dump \ + +datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' +make[7]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=biblio MODULE_PATH=objects/biblio MODULE_ASN=biblio.asn MODULE_IMPORT='objects/general/general' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn' IMPFILES='objects/general/general.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m biblio.asn -M "objects/general/general.asn" -oA \ + -oc biblio -or objects/biblio -odi -od biblio.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd biblio.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqset MODULE_PATH=objects/seqset MODULE_ASN=seqset.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/medline/medline objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -20253,58 +20302,51 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blast MODULE_PATH=objects/blast MODULE_ASN=blast.asn MODULE_IMPORT='objects/scoremat/scoremat objects/seq/seq objects/seqset/seqset objects/seqloc/seqloc objects/seqalign/seqalign' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/scoremat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqalign/seqalign.asn' IMPFILES='objects/scoremat/scoremat.asn objects/seq/seq.asn objects/seqset/seqset.asn objects/seqloc/seqloc.asn objects/seqalign/seqalign.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' +/usr/bin/make[4] (Makefile.blastdb.lib): Nothing to be done for `export-headers'. +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=general MODULE_PATH=objects/general MODULE_ASN=general.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m blast.asn -M "objects/scoremat/scoremat.asn objects/seq/seq.asn objects/seqset/seqset.asn objects/seqloc/seqloc.asn objects/seqalign/seqalign.asn" -oA \ - -oc blast -or objects/blast -odi -od blast.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd blast.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m general.asn -M "" -oA \ + -oc general -or objects/general -odi -od general.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd general.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=medline MODULE_PATH=objects/medline MODULE_ASN=medline.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=scoremat MODULE_PATH=objects/scoremat MODULE_ASN=scoremat.asn MODULE_IMPORT='objects/seqset/seqset objects/general/general' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn' IMPFILES='objects/seqset/seqset.asn objects/general/general.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m medline.asn -M "objects/general/general.asn objects/biblio/biblio.asn" -oA \ - -oc medline -or objects/medline -odi -od medline.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd medline.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m scoremat.asn -M "objects/seqset/seqset.asn objects/general/general.asn" -oA \ + -oc scoremat -or objects/scoremat -odi -od scoremat.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd scoremat.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.biblio.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +/usr/bin/make[4] (Makefile.pub.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=genome_collection MODULE_PATH=objects/genomecoll MODULE_ASN=genome_collection.asn MODULE_IMPORT='objects/general/general objects/seqloc/seqloc objects/seqfeat/seqfeat objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/general/general.asn objects/seqloc/seqloc.asn objects/seqfeat/seqfeat.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m genome_collection.asn -M "objects/general/general.asn objects/seqloc/seqloc.asn objects/seqfeat/seqfeat.asn objects/seq/seq.asn" -oA \ - -oc genome_collection -or objects/genomecoll -odi -od genome_collection.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd genome_collection.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqedit MODULE_PATH=objects/seqedit MODULE_ASN=seqedit.asn MODULE_IMPORT='objects/general/general objects/seqloc/seqloc objects/seqset/seqset objects/seq/seq objects/seqalign/seqalign objects/seqfeat/seqfeat objects/seqres/seqres' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqalign/seqalign.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqres/seqres.asn' IMPFILES='objects/general/general.asn objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn objects/seqres/seqres.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -20314,77 +20356,71 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=scoremat MODULE_PATH=objects/scoremat MODULE_ASN=scoremat.asn MODULE_IMPORT='objects/seqset/seqset objects/general/general' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn' IMPFILES='objects/seqset/seqset.asn objects/general/general.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m scoremat.asn -M "objects/seqset/seqset.asn objects/general/general.asn" -oA \ - -oc scoremat -or objects/scoremat -odi -od scoremat.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd scoremat.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -/usr/bin/make[4] (Makefile.seqcode.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' -/usr/bin/make[4] (Makefile.blastdb.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +/usr/bin/make[4] (Makefile.general.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh gencoll_client all -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -/usr/bin/make[4] (Makefile.pub.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' /usr/bin/make[4] (Makefile.seqset.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' +/usr/bin/make[4] (Makefile.biblio.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +/usr/bin/make[4] (Makefile.scoremat.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -/usr/bin/make[4] (Makefile.medline.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.blast.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=genome_collection MODULE_PATH=objects/genomecoll MODULE_ASN=genome_collection.asn MODULE_IMPORT='objects/general/general objects/seqloc/seqloc objects/seqfeat/seqfeat objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/general/general.asn objects/seqloc/seqloc.asn objects/seqfeat/seqfeat.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m genome_collection.asn -M "objects/general/general.asn objects/seqloc/seqloc.asn objects/seqfeat/seqfeat.asn objects/seq/seq.asn" -oA \ + -oc genome_collection -or objects/genomecoll -odi -od genome_collection.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd genome_collection.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blast MODULE_PATH=objects/blast MODULE_ASN=blast.asn MODULE_IMPORT='objects/scoremat/scoremat objects/seq/seq objects/seqset/seqset objects/seqloc/seqloc objects/seqalign/seqalign' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/scoremat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqalign/seqalign.asn' IMPFILES='objects/scoremat/scoremat.asn objects/seq/seq.asn objects/seqset/seqset.asn objects/seqloc/seqloc.asn objects/seqalign/seqalign.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m blast.asn -M "objects/scoremat/scoremat.asn objects/seq/seq.asn objects/seqset/seqset.asn objects/seqloc/seqloc.asn objects/seqalign/seqalign.asn" -oA \ + -oc blast -or objects/blast -odi -od blast.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd blast.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.seqedit.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh gencoll_client all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -/usr/bin/make[4] (Makefile.seqedit.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.scoremat.lib): Nothing to be done for `export-headers'. +Waiting for /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/make_asn.lock/usr/bin/make[4] (Makefile.blast.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -Waiting for /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/make_asn.lock/usr/bin/make[4] (Makefile.xnetblastcli.lib): Nothing to be done for `export-headers'. -make[7]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +/usr/bin/make[4] (Makefile.xnetblastcli.lib): Nothing to be done for `export-headers'. make[7]: warning: -j12 forced in submake: resetting jobserver mode. make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' status=0 ; \ @@ -20439,63 +20475,95 @@ make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc' /usr/bin/make -w -j12 --jobserver-auth=12,14 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqres MODULE_PATH=objects/seqres MODULE_ASN=seqres.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/medline/medline objects/seqloc/seqloc' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn /build/reproducible-path/ncbmake[7]: warning: -j12 forced in submake: resetting jobserver mode. make[7]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' cd objects/seqsplit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' cd objects/submit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seqsplit all -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh submit all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' cd objects/variation/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' cd objects/id1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' cd objects/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -cd objects/taxon1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' +cd objects/taxon1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seqsplit all cd objects/blastxml/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd objects/blastxml2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh variation all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh id1 all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh variation all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/eutils/egquery/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh id1 all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh id2 all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blastxml all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh submit all +cd objects/blastxml2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh taxon1 all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/eutils/ehistory/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh taxon1 all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blastxml all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh id2 all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +cd objtools/eutils/egquery/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blastxml2 all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +cd objtools/eutils/ehistory/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blastxml2 all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd egquery all cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd ehistory all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd egquery all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -./usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=submit MODULE_PATH=objects/submit MODULE_ASN=submit.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/seq/seq objects/seqset/seqset objects/seqloc/seqloc' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/seq/seq.asn objects/seqset/seqset.asn objects/seqloc/seqloc.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=variation MODULE_PATH=objects/variation MODULE_ASN=variation.asn MODULE_IMPORT='objects/seqfeat/seqfeat objects/general/general objects/seqloc/seqloc objects/pub/pub objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub/pub.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/seqfeat/seqfeat.asn objects/general/general.asn objects/seqloc/seqloc.asn objects/pub/pub.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m variation.asn -M "objects/seqfeat/seqfeat.asn objects/general/general.asn objects/seqloc/seqloc.asn objects/pub/pub.asn objects/seq/seq.asn" -oA \ + -oc variation -or objects/variation -odi -od variation.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd variation.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqsplit MODULE_PATH=objects/seqsplit MODULE_ASN=seqsplit.asn MODULE_IMPORT='objects/seqloc/seqloc objects/seqset/seqset objects/seq/seq objects/seqalign/seqalign objects/seqfeat/seqfeat' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqalign/seqalign.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn' IMPFILES='objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m seqsplit.asn -M "objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn" -oA \ + -oc seqsplit -or objects/seqsplit -odi -od seqsplit.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd seqsplit.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=taxon1 MODULE_PATH=objects/taxon1 MODULE_ASN=taxon1.asn MODULE_IMPORT='objects/seqfeat/seqfeat' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn' IMPFILES='objects/seqfeat/seqfeat.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m taxon1.asn -M "objects/seqfeat/seqfeat.asn" -oA \ + -oc taxon1 -or objects/taxon1 -odi -od taxon1.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd taxon1.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=submit MODULE_PATH=objects/submit MODULE_ASN=submit.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/seq/seq objects/seqset/seqset objects/seqloc/seqloc' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/seq/seq.asn objects/seqset/seqset.asn objects/seqloc/seqloc.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m submit.asn -M "objects/general/general.asn objects/biblio/biblio.asn objects/seq/seq.asn objects/seqset/seqset.asn objects/seqloc/seqloc.asn" -oA \ @@ -20504,29 +20572,38 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. - -Acquired /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/make_asn.lock for PID 3439581 (make_asn) +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit' -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqsplit MODULE_PATH=objects/seqsplit MODULE_ASN=seqsplit.asn MODULE_IMPORT='objects/seqloc/seqloc objects/seqset/seqset objects/seq/seq objects/seqalign/seqalign objects/seqfeat/seqfeat' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqalign/seqalign.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn' IMPFILES='objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=id1 MODULE_PATH=objects/id1 MODULE_ASN=id1.asn MODULE_IMPORT='objects/seqloc/seqloc objects/seqset/seqset objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m seqsplit.asn -M "objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn" -oA \ - -oc seqsplit -or objects/seqsplit -odi -od seqsplit.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd seqsplit.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m id1.asn -M "objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn" -oA \ + -oc id1 -or objects/id1 -odi -od id1.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd id1.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' File blastxml.module not found. Using defaults... /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blastxml MODULE_PATH=objects/blastxml MODULE_ASN=blastxml.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' @@ -20540,18 +20617,36 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.taxon1.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=variation MODULE_PATH=objects/variation MODULE_ASN=variation.asn MODULE_IMPORT='objects/seqfeat/seqfeat objects/general/general objects/seqloc/seqloc objects/pub/pub objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub/pub.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/seqfeat/seqfeat.asn objects/general/general.asn objects/seqloc/seqloc.asn objects/pub/pub.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' +/usr/bin/make[4] (Makefile.variation.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' +/usr/bin/make[4] (Makefile.submit.lib): Nothing to be done for `export-headers'. +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=id2 MODULE_PATH=objects/id2 MODULE_ASN=id2.asn MODULE_IMPORT='objects/seqsplit/seqsplit objects/seqloc/seqloc' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/seqsplit.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn' IMPFILES='objects/seqsplit/seqsplit.asn objects/seqloc/seqloc.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m variation.asn -M "objects/seqfeat/seqfeat.asn objects/general/general.asn objects/seqloc/seqloc.asn objects/pub/pub.asn objects/seq/seq.asn" -oA \ - -oc variation -or objects/variation -odi -od variation.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd variation.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m id2.asn -M "objects/seqsplit/seqsplit.asn objects/seqloc/seqloc.asn" -oA \ + -oc id2 -or objects/id2 -odi -od id2.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd id2.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' File blastxml2.module not found. Using defaults... /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=blastxml2 MODULE_PATH=objects/blastxml2 MODULE_ASN=blastxml2.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' @@ -20562,164 +20657,105 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=id1 MODULE_PATH=objects/id1 MODULE_ASN=id1.asn MODULE_IMPORT='objects/seqloc/seqloc objects/seqset/seqset objects/seq/seq' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq.asn' IMPFILES='objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m id1.asn -M "objects/seqloc/seqloc.asn objects/seqset/seqset.asn objects/seq/seq.asn" -oA \ - -oc id1 -or objects/id1 -odi -od id1.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd id1.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' -/usr/bin/make[4] (Makefile.submit.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' -File egquery.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=egquery MODULE_PATH=objtools/eutils/egquery MODULE_ASN=egquery.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m egquery.dtd -M "" -oA \ - -oc egquery -or objtools/eutils/egquery -odi -od egquery.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd egquery.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1' -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=taxon1 MODULE_PATH=objects/taxon1 MODULE_ASN=taxon1.asn MODULE_IMPORT='objects/seqfeat/seqfeat' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn' IMPFILES='objects/seqfeat/seqfeat.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m taxon1.asn -M "objects/seqfeat/seqfeat.asn" -oA \ - -oc taxon1 -or objects/taxon1 -odi -od taxon1.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd taxon1.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' -File ehistory.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=ehistory MODULE_PATH=objtools/eutils/ehistory MODULE_ASN=ehistory.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m ehistory.dtd -M "" -oA \ - -oc ehistory -or objtools/eutils/ehistory -odi -od ehistory.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd ehistory.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' +./usr/bin/make[4] (Makefile.seqsplit.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/SQLITE3.enabled', needed by 'requirements'. Stop. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +NOTE: skipping project "local_taxon" due to unmet requirements +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' +/usr/bin/make[4] (Makefile.blastxml.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +/usr/bin/make[4] (Makefile.id1.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -/usr/bin/make[4] (Makefile.seqsplit.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=id2 MODULE_PATH=objects/id2 MODULE_ASN=id2.asn MODULE_IMPORT='objects/seqsplit/seqsplit objects/seqloc/seqloc' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/seqsplit.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn' IMPFILES='objects/seqsplit/seqsplit.asn objects/seqloc/seqloc.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +File ehistory.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=ehistory MODULE_PATH=objtools/eutils/ehistory MODULE_ASN=ehistory.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m id2.asn -M "objects/seqsplit/seqsplit.asn objects/seqloc/seqloc.asn" -oA \ - -oc id2 -or objects/id2 -odi -od id2.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd id2.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m ehistory.dtd -M "" -oA \ + -oc ehistory -or objtools/eutils/ehistory -odi -od ehistory.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd ehistory.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' + +Acquired /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/make_asn.lock for PID 1353799 (make_asn) make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -/usr/bin/make[4] (Makefile.blastxml.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -/usr/bin/make[4] (Makefile.variation.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory' /usr/bin/make[4] (Makefile.blastxml2.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.id1.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +/usr/bin/make[4] (Makefile.id1cli.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +/usr/bin/make[4] (Makefile.id2.lib): Nothing to be done for `export-headers'. +File egquery.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=egquery MODULE_PATH=objtools/eutils/egquery MODULE_ASN=egquery.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m egquery.dtd -M "" -oA \ + -oc egquery -or objtools/eutils/egquery -odi -od egquery.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd egquery.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -/usr/bin/make[4] (Makefile.egquery.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.ehistory.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -/usr/bin/make[4] (Makefile.taxon1.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/SQLITE3.enabled', needed by 'requirements'. Stop. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -NOTE: skipping project "local_taxon" due to unmet requirements -/usr/bin/make[4] (Makefile.id2.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.id1cli.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +/usr/bin/make[4] (Makefile.ehistory.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' /usr/bin/make[4] (Makefile.id2cli.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +/usr/bin/make[4] (Makefile.egquery.lib): Nothing to be done for `export-headers'. make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=gencoll_client MODULE_PATH=objects/genomecoll MODULE_ASN=gencoll_client.asn MODULE_IMPORT='objects/genomecoll/genome_collection' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/genome_collection.asn' IMPFILES='objects/genomecoll/genome_collection.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' @@ -20792,56 +20828,62 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' /usr/bin/make[4] (Makefile.seq.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' cd objtools/eutils/einfo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -cd objtools/eutils/elink/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/eutils/elink/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +cd objects/entrez2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd einfo all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd elink all make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -cd objects/entrez2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -cd objtools/eutils/epost/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/eutils/epost/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' cd objtools/eutils/esearch/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -cd objtools/eutils/espell/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd einfo all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd elink all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh entrez2 all +cd objtools/eutils/espell/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' cd objtools/eutils/esummary/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd esearch all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh entrez2 all -cd objtools/eutils/uilist/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd epost all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objects/gbseq/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +cd objtools/eutils/uilist/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd epost all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd esearch all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd espell all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd esummary all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +cd objects/gbseq/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd uilist all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' cd objects/medlars/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd espell all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd esummary all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh --dtd uilist all -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh medlars all cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh gbseq all +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh medlars all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. File einfo.module not found. Using defaults... /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=einfo MODULE_PATH=objtools/eutils/einfo MODULE_ASN=einfo.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all @@ -20853,38 +20895,10 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.einfo.lib): Nothing to be done for `export-headers'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -cd objects/pubmed/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh pubmed all -File uilist.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=uilist MODULE_PATH=objtools/eutils/uilist MODULE_ASN=uilist.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m uilist.dtd -M "" -oA \ - -oc uilist -or objtools/eutils/uilist -odi -od uilist.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd uilist.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. File espell.module not found. Using defaults... /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=espell MODULE_PATH=objtools/eutils/espell MODULE_ASN=espell.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' @@ -20895,31 +20909,37 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -File elink.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=elink MODULE_PATH=objtools/eutils/elink MODULE_ASN=elink.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' +File esearch.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=esearch MODULE_PATH=objtools/eutils/esearch MODULE_ASN=esearch.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m elink.dtd -M "" -oA \ - -oc elink -or objtools/eutils/elink -odi -od elink.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd elink.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m esearch.dtd -M "" -oA \ + -oc esearch -or objtools/eutils/esearch -odi -od esearch.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd esearch.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' +cd objects/pubmed/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' File epost.module not found. Using defaults... /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=epost MODULE_PATH=objtools/eutils/epost MODULE_ASN=epost.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' @@ -20930,42 +20950,20 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.uilist.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -File esearch.module not found. Using defaults... -/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=esearch MODULE_PATH=objtools/eutils/esearch MODULE_ASN=esearch.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +File elink.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=elink MODULE_PATH=objtools/eutils/elink MODULE_ASN=elink.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m esearch.dtd -M "" -oA \ - -oc esearch -or objtools/eutils/esearch -odi -od esearch.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd esearch.dump \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m elink.dtd -M "" -oA \ + -oc elink -or objtools/eutils/elink -odi -od elink.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd elink.dump \ datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -/usr/bin/make[4] (Makefile.espell.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.elink.lib): Nothing to be done for `export-headers'. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' File esummary.module not found. Using defaults... /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=esummary MODULE_PATH=objtools/eutils/esummary MODULE_ASN=esummary.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' @@ -20976,15 +20974,33 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.epost.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +/usr/bin/make[4] (Makefile.einfo.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' +File uilist.module not found. Using defaults... +/usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=uilist MODULE_PATH=objtools/eutils/uilist MODULE_ASN=uilist.dtd MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m uilist.dtd -M "" -oA \ + -oc uilist -or objtools/eutils/uilist -odi -od uilist.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd uilist.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh pubmed all +/usr/bin/make[4] (Makefile.espell.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.esearch.lib): Nothing to be done for `export-headers'. /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=entrez2 MODULE_PATH=objects/entrez2 MODULE_ASN=entrez2.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -20994,17 +21010,37 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=gbseq MODULE_PATH=objects/gbseq MODULE_ASN=gbseq.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -21014,15 +21050,26 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2' -/usr/bin/make[4] (Makefile.esearch.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.elink.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.esummary.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -/usr/bin/make[4] (Makefile.esummary.lib): Nothing to be done for `export-headers'. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' +/usr/bin/make[4] (Makefile.uilist.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.epost.lib): Nothing to be done for `export-headers'. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' +/usr/bin/make[4] (Makefile.entrez2.lib): Nothing to be done for `export-headers'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' @@ -21035,32 +21082,21 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.entrez2.lib): Nothing to be done for `export-headers'. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +/usr/bin/make[4] (Makefile.gbseq.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' +/usr/bin/make[4] (Makefile.entrez2cli.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -/usr/bin/make[4] (Makefile.gbseq.lib): Nothing to be done for `export-headers'. /usr/bin/make[4] (Makefile.medlars.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.entrez2cli.lib): Nothing to be done for `export-headers'. make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=pubmed MODULE_PATH=objects/pubmed MODULE_ASN=pubmed.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/medline/medline' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed' @@ -21118,112 +21154,121 @@ make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh taxon3 all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' cd objects/valid/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' cd objects/general/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=general UNIX_PROJ="" sources= configurables=configurables.null -cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh valid all make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objects/seqcode/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqcode UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' cd objects/blastxml/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastxml UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' cd objects/blastxml2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastxml2 UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -cd objtools/eutils/egquery/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=egquery UNIX_PROJ="" sources= configurables=configurables.null make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +cd objtools/eutils/egquery/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=egquery UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' +cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh valid all cd objtools/eutils/ehistory/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ehistory UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/eutils/einfo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=einfo UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -cd objtools/eutils/elink/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=elink UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +cd objtools/eutils/einfo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=einfo UNIX_PROJ="" sources= configurables=configurables.null make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general TMPL=general -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode TMPL=seqcode -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode TMPL=seqcode -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml TMPL=blastxml -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery TMPL=egquery -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' +cd objtools/eutils/elink/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=elink UNIX_PROJ="" sources= configurables=configurables.null +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2 TMPL=blastxml2 -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery TMPL=egquery -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2 TMPL=blastxml2 -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory TMPL=ehistory -w -j12 --jobserver-auth=7,8 all +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml TMPL=blastxml -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general TMPL=general -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo TMPL=einfo -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory TMPL=ehistory -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink TMPL=elink -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo TMPL=einfo -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink TMPL=elink -w -j12 --jobserver-auth=7,8 all make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' cd objects/entrez2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=entrez2 UNIX_PROJ="" sources= configurables=configurables.null -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2 TMPL=entrez2 -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=taxon3 MODULE_PATH=objects/taxon3 MODULE_ASN=taxon3.asn MODULE_IMPORT='objects/seqfeat/seqfeat' IMPDEPS='/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat/seqfeat.asn' IMPFILES='objects/seqfeat/seqfeat.asn' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -21233,24 +21278,9 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2 TMPL=entrez2 -w -j12 --jobserver-auth=7,8 all -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -/usr/bin/make[4] (Makefile.taxon3.lib): Nothing to be done for `export-headers'. /usr/bin/make -w -j12 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=valid MODULE_PATH=objects/valid MODULE_ASN=valid.asn MODULE_IMPORT='' IMPDEPS='' IMPFILES='' top_srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ builddir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build DATATOOL=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool DATATOOL_WRAPPER='' MODULE_SEARCH=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -21260,13 +21290,19 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.taxon3.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' @@ -21283,9 +21319,33 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost TMPL=epost -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +cd objtools/eutils/esearch/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=esearch UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +cd objtools/eutils/espell/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=espell UNIX_PROJ="" sources= configurables=configurables.null +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch TMPL=esearch -w -j12 --jobserver-auth=7,8 all +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell TMPL=espell -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/BlastOutput_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/blastxml___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/EHistoryItem_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/ehistory___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21297,23 +21357,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -cd objtools/eutils/esearch/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=esearch UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -cd objtools/eutils/espell/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=espell UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/EGQueryResult_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/egquery___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/E2Reply_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21325,18 +21371,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch TMPL=esearch -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell TMPL=espell -w -j12 --jobserver-auth=7,8 all In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2/BlastOutput2_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2/blastxml2___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo/DbInfo_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo/einfo___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21348,7 +21385,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/ELinkResult_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/elink___.cpp:2: @@ -21364,8 +21400,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/Seq_code_set_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/seqcode___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2/BlastOutput2_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2/blastxml2___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21378,8 +21414,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/Date_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/BlastOutput_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/blastxml___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21392,8 +21428,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/E2Reply_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/EGQueryResult_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/egquery___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21406,8 +21442,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/EHistoryItem_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/ehistory___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/Seq_code_set_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/seqcode___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21420,8 +21456,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost/EPostResult_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost/epost___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/ESpellResult_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/espell___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21434,8 +21470,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo/DbInfo_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo/einfo___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/Date_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21447,30 +21483,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/egquery__.cpp -o egquery__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/egquery___.cpp -o egquery___.o -/bin/rm -f libegquery.so .libegquery.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libegquery.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC egquery__.o egquery___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libegquery.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libegquery.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libegquery.so -/bin/ln -f .egquery.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.egquery.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -cd objtools/eutils/esummary/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=esummary UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary TMPL=esummary -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/ESpellResult_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/espell___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost/EPostResult_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost/epost___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -21482,6 +21497,26 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/ehistory__.cpp -o ehistory__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/ehistory___.cpp -o ehistory___.o +/bin/rm -f libehistory.so .libehistory.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libehistory.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC ehistory__.o ehistory___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libehistory.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libehistory.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libehistory.so +/bin/ln -f .ehistory.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ehistory.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +cd objtools/eutils/esummary/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=esummary UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary TMPL=esummary -w -j12 --jobserver-auth=7,8 all In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch/ESearchResult_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch/esearch___.cpp:2: @@ -21496,16 +21531,17 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/blastxml__.cpp -o blastxml__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/blastxml___.cpp -o blastxml___.o -/bin/rm -f libblastxml.so .libblastxml.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libblastxml.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC blastxml__.o blastxml___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblastxml.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblastxml.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastxml.so -/bin/ln -f .blastxml.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastxml.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost/epost__.cpp -o epost__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost/epost___.cpp -o epost___.o +/bin/rm -f libepost.so .libepost.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libepost.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC epost__.o epost___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libepost.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libepost.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libepost.so +/bin/ln -f .epost.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.epost.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' cd objtools/eutils/uilist/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=uilist UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' make[4]: warning: -j12 forced in submake: resetting jobserver mode. @@ -21517,16 +21553,16 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist TMPL=uilist -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/ehistory__.cpp -o ehistory__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/ehistory/ehistory___.cpp -o ehistory___.o -/bin/rm -f libehistory.so .libehistory.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libehistory.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC ehistory__.o ehistory___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libehistory.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libehistory.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libehistory.so -/bin/ln -f .ehistory.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ehistory.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/espell__.cpp -o espell__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/espell___.cpp -o espell___.o +/bin/rm -f libespell.so .libespell.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libespell.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC espell__.o espell___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libespell.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libespell.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libespell.so +/bin/ln -f .espell.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.espell.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' cd objects/gbseq/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=gbseq UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' make[4]: warning: -j12 forced in submake: resetting jobserver mode. @@ -21536,6 +21572,18 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq TMPL=gbseq -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/egquery__.cpp -o egquery__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/egquery___.cpp -o egquery___.o +/bin/rm -f libegquery.so .libegquery.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libegquery.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC egquery__.o egquery___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libegquery.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libegquery.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libegquery.so +/bin/ln -f .egquery.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.egquery.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/seqcode__.cpp -o seqcode__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode/seqcode___.cpp -o seqcode___.o @@ -21545,19 +21593,27 @@ /bin/ln -f libseqcode.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqcode.so /bin/ln -f .seqcode.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqcode.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq TMPL=gbseq -w -j12 --jobserver-auth=7,8 all make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost/epost__.cpp -o epost__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost/epost___.cpp -o epost___.o -/bin/rm -f libepost.so .libepost.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libepost.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC epost__.o epost___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libepost.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libepost.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libepost.so -/bin/ln -f .epost.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.epost.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo/einfo__.cpp -o einfo__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo/einfo___.cpp -o einfo___.o +/bin/rm -f libeinfo.so .libeinfo.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libeinfo.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC einfo__.o einfo___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libeinfo.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libeinfo.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libeinfo.so +/bin/ln -f .einfo.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.einfo.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/blastxml__.cpp -o blastxml__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml/blastxml___.cpp -o blastxml___.o +/bin/rm -f libblastxml.so .libblastxml.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libblastxml.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC blastxml__.o blastxml___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblastxml.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblastxml.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastxml.so +/bin/ln -f .blastxml.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastxml.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary/DocSum_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary/esummary___.cpp:2: @@ -21572,36 +21628,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/espell__.cpp -o espell__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/espell/espell___.cpp -o espell___.o -/bin/rm -f libespell.so .libespell.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libespell.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC espell__.o espell___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libespell.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libespell.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libespell.so -/bin/ln -f .espell.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.espell.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2/blastxml2__.cpp -o blastxml2__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2/blastxml2___.cpp -o blastxml2___.o -/bin/rm -f libblastxml2.so .libblastxml2.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libblastxml2.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC blastxml2__.o blastxml2___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblastxml2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblastxml2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastxml2.so -/bin/ln -f .blastxml2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastxml2.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo/einfo__.cpp -o einfo__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/einfo/einfo___.cpp -o einfo___.o -/bin/rm -f libeinfo.so .libeinfo.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libeinfo.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC einfo__.o einfo___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libeinfo.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libeinfo.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libeinfo.so -/bin/ln -f .einfo.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.einfo.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/IdList_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/uilist___.cpp:2: @@ -21616,6 +21642,27 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2__.cpp -o entrez2__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2___.cpp -o entrez2___.o +/bin/rm -f libentrez2.so .libentrez2.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libentrez2.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC entrez2__.o entrez2___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libentrez2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libentrez2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libentrez2.so +/bin/ln -f .entrez2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.entrez2.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +cd objects/entrez2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=entrez2cli UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2 TMPL=entrez2cli -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/GBAltSeqData_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/gbseq___.cpp:2: @@ -21630,16 +21677,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary/esummary__.cpp -o esummary__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary/esummary___.cpp -o esummary___.o -/bin/rm -f libesummary.so .libesummary.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libesummary.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC esummary__.o esummary___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libesummary.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libesummary.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libesummary.so -/bin/ln -f .esummary.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.esummary.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch/esearch__.cpp -o esearch__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch/esearch___.cpp -o esearch___.o @@ -21650,6 +21687,16 @@ /bin/ln -f .esearch.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.esearch.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2/blastxml2__.cpp -o blastxml2__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2/blastxml2___.cpp -o blastxml2___.o +/bin/rm -f libblastxml2.so .libblastxml2.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libblastxml2.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC blastxml2__.o blastxml2___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblastxml2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblastxml2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastxml2.so +/bin/ln -f .blastxml2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastxml2.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/uilist__.cpp -o uilist__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/uilist___.cpp -o uilist___.o @@ -21660,27 +21707,16 @@ /bin/ln -f .uilist.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.uilist.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2__.cpp -o entrez2__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2___.cpp -o entrez2___.o -/bin/rm -f libentrez2.so .libentrez2.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libentrez2.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC entrez2__.o entrez2___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libentrez2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libentrez2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libentrez2.so -/bin/ln -f .entrez2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.entrez2.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -cd objects/entrez2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=entrez2cli UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2 TMPL=entrez2cli -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary/esummary__.cpp -o esummary__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary/esummary___.cpp -o esummary___.o +/bin/rm -f libesummary.so .libesummary.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libesummary.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC esummary__.o esummary___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libesummary.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libesummary.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libesummary.so +/bin/ln -f .esummary.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.esummary.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/elink__.cpp -o elink__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/elink___.cpp -o elink___.o @@ -21709,40 +21745,7 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/esearch.cpp -o esearch.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/egquery.cpp -o egquery.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/epost.cpp -o epost.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUGmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general__.cpp -o general__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general___.cpp -o general___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/uoconv.cpp -o uoconv.o -/bin/rm -f libgeneral.so .libgeneral.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libgeneral.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC general__.o general___.o uoconv.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgeneral.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libgeneral.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgeneral.so -/bin/ln -f .general.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.general.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -cd objects/biblio/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=biblio UNIX_PROJ="" sources= configurables=configurables.null -cd objects/valid/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=valid UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid TMPL=valid -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio TMPL=biblio -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUGIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2_client_.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; @@ -21755,8 +21758,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/elink.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/elink.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/eutils.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21764,26 +21766,39 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/elink.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_rule_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid___.cpp:2: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:37: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CRetryContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CRetryContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CRPCClientException::CRPCClientException(const ncbi::CDiagCompileInfo&, const ncbi::CException*, EErrCode, const std::string&, ncbi::EDiagSev)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/rpcbase_impl.hpp:177:5: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CRPCClientException::CRPCClientException(const ncbi::CDiagCompileInfo&, const ncbi::CException*, EErrCode, const std::string&, ncbi::EDiagSev)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/elink.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/elink.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 198 | auto_ptr m_Stream; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/elink.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esearch.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/esearch.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/efetch.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21791,11 +21806,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esearch.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/efetch.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/eutils.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/egquery.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/egquery.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21803,12 +21819,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/egquery.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esummary.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/esummary.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/epost.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/epost.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21816,12 +21832,16 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esummary.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/epost.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/epost.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/epost.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp: In member function 'virtual ncbi::CRef ncbi::CEFetch_Request::FetchIdList(int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp:132:12: warning: catching polymorphic type 'class ncbi::CSerialException' by value [-Wcatch-value=] + 132 | catch (CSerialException) { + | ^~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esearch.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/esearch.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21829,7 +21849,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/epost.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esearch.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -21859,13 +21879,8 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/efetch.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 198 | auto_ptr m_Stream; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/egquery.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/egquery.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/ehistory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/ehistory.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21873,34 +21888,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/egquery.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/efetch.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/Affil_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio___.cpp:2: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/ehistory.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/ehistory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/ehistory.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esummary.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/esummary.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 198 | auto_ptr m_Stream; | ^~~~~~~~ @@ -21908,120 +21901,134 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/ehistory.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp: In member function 'virtual ncbi::CRef ncbi::CEFetch_Request::FetchIdList(int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp:132:12: warning: catching polymorphic type 'class ncbi::CSerialException' by value [-Wcatch-value=] - 132 | catch (CSerialException) { - | ^~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_set.cpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid__.cpp:3: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/error_codes.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/static_set.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_rule.cpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid__.cpp:2: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_set.cpp: In function 'void ncbi::objects::s_InitializeStructuredCommentRules()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_set.cpp:118:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 118 | auto_ptr in; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esummary.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:39: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = einfo::CEInfoResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = einfo::CEInfoResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CRef ncbi::CEInfo_Request::GetEInfoResult()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/einfo.cpp:67:1: + inlined from 'void ncbi::CRef::Reset() [with C = uilist::CIdList; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = uilist::CIdList; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::CRef ncbi::CEFetch_Request::FetchIdList(int)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp:142:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CRef ncbi::CEInfo_Request::GetEInfoResult()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual ncbi::CRef ncbi::CEFetch_Request::FetchIdList(int)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2_client.cpp -o entrez2_client.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2_client_.cpp -o entrez2_client_.o +/bin/rm -f libentrez2cli.so .libentrez2cli.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libentrez2cli.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC entrez2_client.o entrez2_client_.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lentrez2 -lxconnect -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libentrez2cli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libentrez2cli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libentrez2cli.so +/bin/ln -f .entrez2cli.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.entrez2cli.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:39: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CEUtils_ConnContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CEUtils_ConnContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CEUtils_Request::CEUtils_Request(ncbi::CRef&, const std::string&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/eutils.cpp:59:1: + inlined from 'void ncbi::CRef::Reset() [with C = ehistory::CEHistoryResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ehistory::CEHistoryResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CRef ncbi::CEHistory_Request::GetEHistoryResult()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/ehistory.cpp:67:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CEUtils_Request::CEUtils_Request(ncbi::CRef&, const std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CRef ncbi::CEHistory_Request::GetEHistoryResult()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:39: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = egquery::CResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = egquery::CResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CRef ncbi::CEGQuery_Request::GetResult()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/egquery.cpp:77:1: + inlined from 'void ncbi::CRef::Reset() [with C = espell::CESpellResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = espell::CESpellResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CRef ncbi::CESpell_Request::GetESpellResult()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/espell.cpp:79:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CRef ncbi::CEGQuery_Request::GetResult()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CRef ncbi::CESpell_Request::GetESpellResult()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general__.cpp -o general__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general___.cpp -o general___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/uoconv.cpp -o uoconv.o +/bin/rm -f libgeneral.so .libgeneral.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libgeneral.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC general__.o general___.o uoconv.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgeneral.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libgeneral.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgeneral.so +/bin/ln -f .general.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.general.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +cd objects/biblio/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=biblio UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objects/valid/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=valid UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio TMPL=biblio -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid TMPL=valid -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:39: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = elink::CELinkResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = elink::CELinkResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CRef ncbi::CELink_Request::GetELinkResult()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/elink.cpp:147:1: + inlined from 'void ncbi::CRef::Reset() [with C = egquery::CResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = egquery::CResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CRef ncbi::CEGQuery_Request::GetResult()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/egquery.cpp:77:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CRef ncbi::CELink_Request::GetELinkResult()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CRef ncbi::CEGQuery_Request::GetResult()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:39: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = espell::CESpellResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = espell::CESpellResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CRef ncbi::CESpell_Request::GetESpellResult()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/espell.cpp:79:1: + inlined from 'void ncbi::CRef::Reset() [with C = epost::CEPostResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = epost::CEPostResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CRef ncbi::CEPost_Request::GetEPostResult()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/epost.cpp:84:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CRef ncbi::CESpell_Request::GetESpellResult()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CRef ncbi::CEPost_Request::GetEPostResult()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:39: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = epost::CEPostResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = epost::CEPostResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CRef ncbi::CEPost_Request::GetEPostResult()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/epost.cpp:84:1: + inlined from 'void ncbi::CRef::Reset() [with C = elink::CELinkResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = elink::CELinkResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CRef ncbi::CELink_Request::GetELinkResult()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/elink.cpp:147:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CRef ncbi::CEPost_Request::GetEPostResult()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CRef ncbi::CELink_Request::GetELinkResult()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ @@ -22042,52 +22049,28 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:39: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = uilist::CIdList; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = uilist::CIdList; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::CRef ncbi::CEFetch_Request::FetchIdList(int)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/efetch.cpp:142:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual ncbi::CRef ncbi::CEFetch_Request::FetchIdList(int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:37: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CRetryContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CRetryContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CRPCClientException::CRPCClientException(const ncbi::CDiagCompileInfo&, const ncbi::CException*, EErrCode, const std::string&, ncbi::EDiagSev)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/rpcbase_impl.hpp:177:5: + inlined from 'void ncbi::CRef::Reset() [with C = einfo::CEInfoResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = einfo::CEInfoResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CRef ncbi::CEInfo_Request::GetEInfoResult()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/einfo.cpp:67:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CRPCClientException::CRPCClientException(const ncbi::CDiagCompileInfo&, const ncbi::CException*, EErrCode, const std::string&, ncbi::EDiagSev)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CRef ncbi::CEInfo_Request::GetEInfoResult()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/gbseq__.cpp -o gbseq__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/gbseq___.cpp -o gbseq___.o -/bin/rm -f libgbseq.so .libgbseq.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libgbseq.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC gbseq__.o gbseq___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgbseq.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libgbseq.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgbseq.so -/bin/ln -f .gbseq.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.gbseq.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:39: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ehistory::CEHistoryResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ehistory::CEHistoryResult; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CRef ncbi::CEHistory_Request::GetEHistoryResult()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/ehistory.cpp:67:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CEUtils_ConnContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CEUtils_ConnContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CEUtils_Request::CEUtils_Request(ncbi::CRef&, const std::string&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/eutils.cpp:59:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CRef ncbi::CEHistory_Request::GetEHistoryResult()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CEUtils_Request::CEUtils_Request(ncbi::CRef&, const std::string&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ @@ -22105,16 +22088,30 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2_client.cpp -o entrez2_client.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2_client_.cpp -o entrez2_client_.o -/bin/rm -f libentrez2cli.so .libentrez2cli.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libentrez2cli.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC entrez2_client.o entrez2_client_.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lentrez2 -lxconnect -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libentrez2cli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libentrez2cli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libentrez2cli.so -/bin/ln -f .entrez2cli.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.entrez2cli.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/gbseq__.cpp -o gbseq__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/gbseq___.cpp -o gbseq___.o +/bin/rm -f libgbseq.so .libgbseq.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libgbseq.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC gbseq__.o gbseq___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgbseq.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libgbseq.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgbseq.so +/bin/ln -f .gbseq.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.gbseq.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_rule_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid___.cpp:2: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/elink.cpp -o elink.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/esummary.cpp -o esummary.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/api/espell.cpp -o espell.o @@ -22126,6 +22123,45 @@ /bin/ln -f .eutils.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.eutils.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_set.cpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid__.cpp:3: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/error_codes.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/static_set.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_rule.cpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid__.cpp:2: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_set.cpp: In function 'void ncbi::objects::s_InitializeStructuredCommentRules()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/Comment_set.cpp:118:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 118 | auto_ptr in; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/Affil_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio/biblio___.cpp:2: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid__.cpp -o valid__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid___.cpp -o valid___.o @@ -22155,18 +22191,18 @@ make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars TMPL=medlars -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline TMPL=medline -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars TMPL=medlars -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, @@ -22218,25 +22254,25 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' cd objects/pub/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=pub UNIX_PROJ="" sources= configurables=configurables.null -cd objects/pubmed/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=pubmed UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objects/pubmed/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=pubmed UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub TMPL=pub -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed TMPL=pubmed -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub TMPL=pub -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, @@ -22299,15 +22335,15 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq TMPL=seq -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq TMPL=seq -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla TMPL=mla -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla TMPL=mla -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq__.cpp -o seq__.o @@ -22322,8 +22358,9 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqblock___.cpp -o seqblock___.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqfeat___.cpp -o seqfeat___.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/Error_val_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqblock/EMBL_block_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqblock/seqblock___.cpp:2, + from seqblock___.cpp:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22366,20 +22403,6 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/Align_def_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq___.cpp:2: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqalign/Dense_diag_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqalign/seqalign___.cpp:2, from seqalign___.cpp:1: @@ -22395,9 +22418,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/Gb_qual.cpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:15, - from seqfeat__.cpp:1: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/Error_val_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22405,18 +22427,13 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/BinomialOrgName_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/BinomialOrgName.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/BinomialOrgName.cpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqblock/EMBL_block_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqblock/seqblock___.cpp:2, - from seqblock___.cpp:1: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/Align_def_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22428,21 +22445,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:19: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/Genetic_code_table.cpp: In static member function 'static void ncbi::objects::CGen_code_table::LoadTransTable(const std::string&, ncbi::ESerialDataFormat)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/Genetic_code_table.cpp:379:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 379 | auto_ptr ois(CObjectIStream::Open(path, format)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/Genetic_code_table.cpp: In constructor 'ncbi::objects::CGen_code_table_imp::CGen_code_table_imp()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/Genetic_code_table.cpp:452:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 452 | auto_ptr - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_id.cpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/seqloc__.cpp:10, @@ -22485,6 +22487,40 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqalign/Seq_align.cpp:1365:6: note: declared here 1365 | void CSeq_align::RemapToLoc(TDim row, | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/Gb_qual.cpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:15, + from seqfeat__.cpp:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/BinomialOrgName_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/BinomialOrgName.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/BinomialOrgName.cpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:2: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:19: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/Genetic_code_table.cpp: In static member function 'static void ncbi::objects::CGen_code_table::LoadTransTable(const std::string&, ncbi::ESerialDataFormat)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/Genetic_code_table.cpp:379:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 379 | auto_ptr ois(CObjectIStream::Open(path, format)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/Genetic_code_table.cpp: In constructor 'ncbi::objects::CGen_code_table_imp::CGen_code_table_imp()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/Genetic_code_table.cpp:452:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 452 | auto_ptr + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:30: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/PCRPrimerSeq.cpp: In static member function 'static bool ncbi::objects::CPCRPrimerSeq::Fixi(std::string&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/PCRPrimerSeq.cpp:249:25: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] @@ -22493,11 +22529,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, | ^~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/RNA_ref.cpp: In function 'ncbi::CTempString ncbi::objects::s_AaName(int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/RNA_ref.cpp:124:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare] - 124 | if (idx > 0 && idx < ArraySize(sc_TrnaList)) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/seqloc__.cpp:13: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp: In function 'void ncbi::objects::x_MergeAndSort(CSeq_loc&, const CSeq_loc&, CSeq_loc::TOpFlags, ISynonymMapper&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp:4648:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -22506,17 +22537,11 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla__.cpp -o mla__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla___.cpp -o mla___.o -/bin/rm -f libmla.so .libmla.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libmla.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC mla__.o mla___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lmedlars -lpub -lpubmed -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libmla.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libmla.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libmla.so -/bin/ln -f .mla.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.mla.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -cd objects/mla/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=mlacli UNIX_PROJ="" sources= configurables=configurables.null +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/RNA_ref.cpp: In function 'ncbi::CTempString ncbi::objects::s_AaName(int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/RNA_ref.cpp:124:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare] + 124 | if (idx > 0 && idx < ArraySize(sc_TrnaList)) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp: In function 'void ncbi::objects::x_SubAndSort(CSeq_loc&, const CSeq_loc&, const TFuzzMap&, const TFuzzMap&, const TFuzzMap&, const TFuzzMap&, TIdToRangeColl&, TIdToRangeColl&, ISynonymMapper&, ILengthGetter&, CSeq_loc::TOpFlags)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp:4933:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 4933 | auto_ptr p_id_map_minus(use_strand ? @@ -22551,8 +22576,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp:5108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 5108 | auto_ptr p_rg_coll_minus(use_strand ? | ^~~~~~~~ @@ -22566,6 +22589,34 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqres/Byte_graph_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqres/seqres___.cpp:2, + from seqres___.cpp:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla__.cpp -o mla__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla___.cpp -o mla___.o +/bin/rm -f libmla.so .libmla.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libmla.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC mla__.o mla___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lmedlars -lpub -lpubmed -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libmla.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libmla.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libmla.so +/bin/ln -f .mla.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.mla.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +cd objects/mla/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=mlacli UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' @@ -22597,9 +22648,9 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqres/Byte_graph_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqres/seqres___.cpp:2, - from seqres___.cpp:1: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqtable/BVector_data_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqtable/seqtable___.cpp:2, + from seqtable___.cpp:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22643,21 +22694,6 @@ 4349 | string* last = 0; | ^~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqtable/BVector_data_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqtable/seqtable___.cpp:2, - from seqtable___.cpp:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla_client_.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; @@ -22737,36 +22773,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqloc___.cpp -o seqloc___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqres___.cpp -o seqres___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqtable___.cpp -o seqtable___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seqport_util.cpp -o seqport_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_id_tree.cpp -o seq_id_tree.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_id_handle.cpp -o seq_id_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducibleIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:37: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CRetryContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CRetryContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CRPCClientException::CRPCClientException(const ncbi::CDiagCompileInfo&, const ncbi::CException*, EErrCode, const std::string&, ncbi::EDiagSev)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/rpcbase_impl.hpp:177:5: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CRPCClientException::CRPCClientException(const ncbi::CDiagCompileInfo&, const ncbi::CException*, EErrCode, const std::string&, ncbi::EDiagSev)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla_client.cpp -o mla_client.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla_client_.cpp -o mla_client_.o -/bin/rm -f libmlacli.so .libmlacli.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libmlacli.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC mla_client.o mla_client_.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lmla -lxconnect -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libmlacli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libmlacli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libmlacli.so -/bin/ln -f .mlacli.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.mlacli.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seqport_util.cpp: In member function 'ncbi::CRef ncbi::objects::CSeqportUtil_implementation::Init()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seqport_util.cpp:1307:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1307 | auto_ptr @@ -22792,6 +22798,36 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:37: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CRetryContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CRetryContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CRPCClientException::CRPCClientException(const ncbi::CDiagCompileInfo&, const ncbi::CException*, EErrCode, const std::string&, ncbi::EDiagSev)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/rpcbase_impl.hpp:177:5: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CRPCClientException::CRPCClientException(const ncbi::CDiagCompileInfo&, const ncbi::CException*, EErrCode, const std::string&, ncbi::EDiagSev)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqloc___.cpp -o seqloc___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqres___.cpp -o seqres___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include seqtable___.cpp -o seqtable___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seqport_util.cpp -o seqport_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_id_tree.cpp -o seq_id_tree.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_id_handle.cpp -o seq_id_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproduciblemake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla_client.cpp -o mla_client.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla/mla_client_.cpp -o mla_client_.o +/bin/rm -f libmlacli.so .libmlacli.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libmlacli.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC mla_client.o mla_client_.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lmla -lxconnect -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libmlacli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libmlacli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libmlacli.so +/bin/ln -f .mlacli.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.mlacli.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_id_tree.cpp: In member function 'virtual void ncbi::objects::CSeq_id_Giim_Tree::FindMatchStr(const std::string&, ncbi::objects::CSeq_id_Which_Tree::TSeq_id_MatchList&) const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_id_tree.cpp:2871:12: warning: catching polymorphic type 'class ncbi::CStringException' by value [-Wcatch-value=] 2871 | catch (CStringException) { @@ -22811,7 +22847,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_align_mapper_base.cpp: In member function 'void ncbi::objects::CSeq_align_Mapper_Base::x_GetDstStd(ncbi::CRef&) const': +-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_id_mapper.cpp -o seq_id_mapper.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_loc_mapper_base.cpp -o seq_loc_mapper_base.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_align_mapper_base.cpp -o seq_align_mapper_base.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seqlocinfo.cpp -o seqlocinfo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/so_map.cpp -o so_map.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/ob/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_align_mapper_base.cpp: In member function 'void ncbi::objects::CSeq_align_Mapper_Base::x_GetDstStd(ncbi::CRef&) const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_align_mapper_base.cpp:1505:32: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 1505 | if ( row_n == p_row ) { | ~~~~~~^~~~~~~~ @@ -22836,12 +22877,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ --path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_id_mapper.cpp -o seq_id_mapper.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_loc_mapper_base.cpp -o seq_loc_mapper_base.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_align_mapper_base.cpp -o seq_align_mapper_base.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seqlocinfo.cpp -o seqlocinfo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/so_map.cpp -o so_map.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/ob/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_loc_reverse_complementer.cpp: In function 'ncbi::objects::CSeq_interval* ncbi::objects::s_SeqIntRevCmp(const CSeq_interval&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_loc_reverse_complementer.cpp: In function 'ncbi::objects::CSeq_interval* ncbi::objects::s_SeqIntRevCmp(const CSeq_interval&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/seq_loc_reverse_complementer.cpp:60:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 60 | auto_ptr rev_int(new CSeq_interval); | ^~~~~~~~ @@ -22916,9 +22952,9 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' cd objects/seqset/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqset UNIX_PROJ="" sources= configurables=configurables.null -cd objects/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastdb UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objects/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastdb UNIX_PROJ="" sources= configurables=configurables.null cd objects/genomecoll/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=genome_collection UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. @@ -22926,19 +22962,17 @@ make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objects/taxon1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=taxon1 UNIX_PROJ="" sources= configurables=configurables.null -cd objects/taxon3/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=taxon3 UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objects/taxon3/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=taxon3 UNIX_PROJ="" sources= configurables=configurables.null make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' @@ -22946,44 +22980,46 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset TMPL=seqset -w -j12 --jobserver-auth=7,8 all +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb TMPL=blastdb -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1 TMPL=taxon1 -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll TMPL=genome_collection -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1 TMPL=taxon1 -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3 TMPL=taxon3 -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation TMPL=variation -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation TMPL=variation -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3 TMPL=taxon3 -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb/Blast_db_mask_info_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb/blastdb___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/SequenceOfInt_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -22996,8 +23032,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/Taxon1_data_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/GC_Assemblies_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/genome_collection___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -23009,9 +23045,21 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/gb_release_file.cpp:68:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 68 | auto_ptr m_In; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/gb_release_file.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/gb_release_file.cpp:32: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/GC_Assemblies_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/genome_collection___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb/Blast_db_mask_info_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb/blastdb___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -23024,8 +23072,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/SequenceOfInt_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/Bioseq_set_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -23038,8 +23086,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/VariantPlacement_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/variation___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/Taxon1_data_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -23052,8 +23100,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/Bioseq_set_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/VariantPlacement_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/variation___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -23065,6 +23113,33 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/cache.cpp: In member function 'void ncbi::objects::CDomainStorage::AddField(int, int, const std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/cache.cpp:787:24: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 787 | if( m_types.size() <= field_no ) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp: In member function 'virtual ncbi::CRef ncbi::objects::CTaxon3::SendRequest(const ncbi::objects::CTaxon3_request&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:116:25: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 116 | auto_ptr pOut; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:117:25: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr pIn; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:118:25: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 118 | auto_ptr + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1.cpp: In member function 'bool ncbi::objects::CTaxon1::Init(const STimeout*, unsigned int, unsigned int)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1.cpp:141:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 141 | auto_ptr pServer; @@ -23088,18 +23163,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/gb_release_file.cpp:68:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 68 | auto_ptr m_In; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/gb_release_file.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/gb_release_file.cpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1.cpp: In member function 'bool ncbi::objects::CTaxon1::SendRequest(ncbi::objects::CTaxon1_req&, ncbi::objects::CTaxon1_resp&, bool)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1.cpp:1491:17: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1491 | auto_ptr pOut; @@ -23119,33 +23182,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp: In member function 'virtual ncbi::CRef ncbi::objects::CTaxon3::SendRequest(const ncbi::objects::CTaxon3_request&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:116:25: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 116 | auto_ptr pOut; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:117:25: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr pIn; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3.cpp:118:25: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 118 | auto_ptr - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/cache.cpp: In member function 'void ncbi::objects::CDomainStorage::AddField(int, int, const std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/cache.cpp:787:24: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 787 | if( m_types.size() <= field_no ) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb/blastdb__.cpp -o blastdb__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb/blastdb___.cpp -o blastdb___.o @@ -23174,20 +23210,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1__.cpp -o taxon1__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1___.cpp -o taxon1___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1.cpp -o taxon1.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/cache.cpp -o cache.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/utils.cpp -o utils.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/ctreecont.cpp -o ctreecont.o -/bin/rm -f libtaxon1.so .libtaxon1.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libtaxon1.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC taxon1__.o taxon1___.o taxon1.o cache.o utils.o ctreecont.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxconnect -lseq -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libtaxon1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libtaxon1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libtaxon1.so -/bin/ln -f .taxon1.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.taxon1.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset__.cpp -o seqset__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset/seqset___.cpp -o seqset___.o @@ -23201,10 +23223,10 @@ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' cd objects/scoremat/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=scoremat UNIX_PROJ="" sources= configurables=configurables.null cd objects/seqedit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqedit UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objects/seqsplit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqsplit UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd objects/submit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=submit UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' @@ -23214,46 +23236,46 @@ make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat TMPL=scoremat -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit TMPL=submit -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit TMPL=seqsplit -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit TMPL=seqedit -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit TMPL=submit -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat TMPL=scoremat -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1 TMPL=id1 -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3__.cpp -o taxon3__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3/taxon3___.cpp -o taxon3___.o @@ -23265,19 +23287,9 @@ /bin/ln -f .taxon3.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.taxon3.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/variation__.cpp -o variation__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/variation___.cpp -o variation___.o -/bin/rm -f libvariation.so .libvariation.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libvariation.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC variation__.o variation___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseq -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libvariation.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libvariation.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libvariation.so -/bin/ln -f .variation.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.variation.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/Entry_complexities_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/id1___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/BlockProperty_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/scoremat___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -23290,8 +23302,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/Contact_info_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/submit___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/Entry_complexities_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/id1___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -23304,8 +23316,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/BlockProperty_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/scoremat___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/SeqEdit_Cmd_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/seqedit___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -23317,6 +23329,16 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/variation__.cpp -o variation__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation/variation___.cpp -o variation___.o +/bin/rm -f libvariation.so .libvariation.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libvariation.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC variation__.o variation___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseq -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libvariation.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libvariation.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libvariation.so +/bin/ln -f .variation.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.variation.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/ID2S_Bioseq_Ids_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/seqsplit___.cpp:2: @@ -23331,18 +23353,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/genome_collection__.cpp -o genome_collection__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/genome_collection___.cpp -o genome_collection___.o -/bin/rm -f libgenome_collection.so .libgenome_collection.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libgenome_collection.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC genome_collection__.o genome_collection___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseq -lgeneral -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgenome_collection.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libgenome_collection.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgenome_collection.so -/bin/ln -f .genome_collection.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.genome_collection.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/SeqEdit_Cmd_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/seqedit___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/Contact_info_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/submit___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -23354,7 +23367,43 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1__.cpp -o taxon1__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1___.cpp -o taxon1___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1.cpp -o taxon1.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/cache.cpp -o cache.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/utils.cpp -o utils.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/ctreecont.cpp -o ctreecont.o +/bin/rm -f libtaxon1.so .libtaxon1.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libtaxon1.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC taxon1__.o taxon1___.o taxon1.o cache.o utils.o ctreecont.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxconnect -lseq -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libtaxon1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libtaxon1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libtaxon1.so +/bin/ln -f .taxon1.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.taxon1.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/genome_collection__.cpp -o genome_collection__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/genome_collection___.cpp -o genome_collection___.o +/bin/rm -f libgenome_collection.so .libgenome_collection.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libgenome_collection.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC genome_collection__.o genome_collection___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseq -lgeneral -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libgenome_collection.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libgenome_collection.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libgenome_collection.so +/bin/ln -f .genome_collection.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.genome_collection.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/scoremat__.cpp -o scoremat__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/scoremat___.cpp -o scoremat___.o +/bin/rm -f libscoremat.so .libscoremat.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libscoremat.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC scoremat__.o scoremat___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqset -lseq -lgeneral -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libscoremat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libscoremat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libscoremat.so +/bin/ln -f .scoremat.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.scoremat.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +cd objects/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/id1__.cpp -o id1__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/id1___.cpp -o id1___.o @@ -23365,6 +23414,14 @@ /bin/ln -f .id1.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.id1.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast TMPL=blast -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/submit__.cpp -o submit__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/submit___.cpp -o submit___.o @@ -23503,44 +23560,60 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/scoremat__.cpp -o scoremat__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat/scoremat___.cpp -o scoremat___.o -/bin/rm -f libscoremat.so .libscoremat.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libscoremat.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC scoremat__.o scoremat___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqset -lseq -lgeneral -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libscoremat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libscoremat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libscoremat.so -/bin/ln -f .scoremat.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.scoremat.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -cd objects/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast TMPL=blast -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/Blas_get_searc_resul_reply_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blast___.cpp:2: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ td=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/acc_pattern.cpp -o acc_pattern.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_read.cpp -o agp_read.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_seq_entry.cpp -o agp_seq_entry.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_util.cpp -o agp_util.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp -o agp_validate_reader.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/cigar.cpp -o cigar.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fs/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_util.cpp: In member function 'int ncbi::CAgpErrEx::GetCount(ncbi::CAgpErr::EErrCode) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_util.cpp:1706:14: warning: comparison between 'enum ncbi::CAgpErr::EErrCode' and 'enum ncbi::CAgpErrEx::' [-Wenum-compare] - 1706 | if (code < CODE_Last) { - | ~~~~~^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp: In member function 'virtual void ncbi::CAgpValidateReader::OnGapOrComponent()': +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fs/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp: In member function 'virtual void ncbi::CAgpValidateReader::OnGapOrComponent()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:160:20: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] 160 | if(m_max_obj_beg < m_this_row->object_beg) m_max_obj_beg = m_this_row->object_beg; | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:229:23: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] 229 | if(m_max_comp_beg < m_this_row->component_beg) m_max_comp_beg = m_this_row->component_beg; | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:405:25: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] + 405 | if(it->second != m_this_row->component_end) m_has_partial_comp=true; + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:407:27: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] + 407 | if(it->second > m_this_row->component_end || m_this_row->component_beg>1) { + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp: In member function 'virtual void ncbi::CAgpValidateReader::OnObjectChange()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:541:28: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] + 541 | if(m_expected_obj_len!=m_prev_row->object_end) { + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:585:28: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] + 585 | catch(CException e){ + | ^ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/seqedit__.cpp -o seqedit__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/seqedit___.cpp -o seqedit___.o +/bin/rm -f libseqedit.so .libseqedit.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libseqedit.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC seqedit__.o seqedit___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqset -lseq -lgeneral -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libseqedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libseqedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqedit.so +/bin/ln -f .seqedit.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqedit.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_util.cpp: In member function 'int ncbi::CAgpErrEx::GetCount(ncbi::CAgpErr::EErrCode) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_util.cpp:1706:14: warning: comparison between 'enum ncbi::CAgpErr::EErrCode' and 'enum ncbi::CAgpErrEx::' [-Wenum-compare] + 1706 | if (code < CODE_Last) { + | ~~~~~^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_read.cpp: In function 'ncbi::CRef ncbi::AgpRead(CNcbiIstream&, EAgpRead_IdRule, bool, std::vector >*)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_read.cpp:58:12: warning: 'void ncbi::AgpRead(CNcbiIstream&, std::vector >&, EAgpRead_IdRule, bool, std::vector >*)' is deprecated [-Wdeprecated-declarations] 58 | AgpRead(is, entries, component_id_rule, set_gap_data, component_types); @@ -23556,19 +23629,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/agp_read.hpp:52:6: note: declared here 52 | void AgpRead(CNcbiIstream& is, | ^~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:405:25: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] - 405 | if(it->second != m_this_row->component_end) m_has_partial_comp=true; - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:407:27: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] - 407 | if(it->second > m_this_row->component_end || m_this_row->component_beg>1) { - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp: In member function 'virtual void ncbi::CAgpValidateReader::OnObjectChange()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:541:28: warning: comparison of integer expressions of different signedness: 'int' and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] - 541 | if(m_expected_obj_len!=m_prev_row->object_end) { - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_validate_reader.cpp:585:28: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] - 585 | catch(CException e){ - | ^ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/seqid_validate.cpp:34: @@ -23582,20 +23642,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/Blas_get_searc_resul_reply_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blast___.cpp:2: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/format_guess_ex.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/format_guess_ex.hpp:140:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 140 | auto_ptr m_Guesser; @@ -23608,6 +23654,23 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/read_util.cpp:33: +In member function 'void ncbi::CObject::AddReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, + inlined from 'void ncbi::CRef::x_LockFromPtr() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1197:36, + inlined from 'ncbi::CRef::CRef(TObjectType*) [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:648:26, + inlined from 'static ncbi::CRef ncbi::objects::CReadUtil::AsSeqId(const std::string&, unsigned int, bool)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/read_util.cpp:137:62: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 494 | CheckReferenceOverflow(newCount - eCounterStep); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In static member function 'static ncbi::CRef ncbi::objects::CReadUtil::AsSeqId(const std::string&, unsigned int, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/alnread.cpp:34: @@ -23621,22 +23684,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -tack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta.cpp -o fasta.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formats.cpp -o aln_formats.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/alnread.cpp -o alnread.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_errors.cpp -o aln_errors.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_error_reporter.cpp -o aln_error_reporter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp -o aln_formatguess.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -Dmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/seqedit__.cpp -o seqedit__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit/seqedit___.cpp -o seqedit___.o -/bin/rm -f libseqedit.so .libseqedit.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libseqedit.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC seqedit__.o seqedit___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqset -lseq -lgeneral -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libseqedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libseqedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqedit.so -/bin/ln -f .seqedit.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqedit.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -23648,58 +23695,47 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/format_guess_ex.cpp: In member function 'bool ncbi::CFormatGuessEx::x_TryRmo()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/format_guess_ex.cpp:242:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 242 | auto_ptr reader(new CRepeatMaskerReader(Flags)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_errors.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_errors.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/format_guess_ex.cpp: In member function 'bool ncbi::CFormatGuessEx::x_TryRmo()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/format_guess_ex.cpp:242:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 242 | auto_ptr reader(new CRepeatMaskerReader(Flags)); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_errors.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_errors.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/read_util.cpp:33: -In member function 'void ncbi::CObject::AddReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, - inlined from 'void ncbi::CRef::x_LockFromPtr() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1197:36, - inlined from 'ncbi::CRef::CRef(TObjectType*) [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:648:26, - inlined from 'static ncbi::CRef ncbi::objects::CReadUtil::AsSeqId(const std::string&, unsigned int, bool)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/read_util.cpp:137:62: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 494 | CheckReferenceOverflow(newCount - eCounterStep); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In static member function 'static ncbi::CRef ncbi::objects::CReadUtil::AsSeqId(const std::string&, unsigned int, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:37: +tack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta.cpp -o fasta.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formats.cpp -o aln_formats.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/alnread.cpp -o alnread.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_errors.cpp -o aln_errors.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_error_reporter.cpp -o aln_error_reporter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp -o aln_formatguess.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -DIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:37: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, @@ -23713,51 +23749,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp: In function 'void ncbi::objects::AlnUtil::CheckId(const std::string&, const std::vector&, int, int, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp:56:28: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 56 | if ((orderedIds.size() > idCount) && - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_error_reporter.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_error_reporter.cpp:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_error_reporter.hpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/seqsplit__.cpp -o seqsplit__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/seqsplit___.cpp -o seqsplit___.o @@ -23769,26 +23760,20 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' cd objmgr/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=objmgr UNIX_PROJ="" sources= configurables=configurables.null -cd objects/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=id2 UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objects/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=id2 UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp -o aln_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp -o aln_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp -o aln_scanner.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp -o aln_scanner_fastagap.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp -o aln_scanner_clustal.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_nexus.cpp -o aln_scanner_nexus.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' @@ -23805,6 +23790,34 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp -o snp_annot_info.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_error_reporter.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_error_reporter.cpp:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_error_reporter.hpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; @@ -23816,24 +23829,50 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp: In member function 'virtual void ncbi::objects::CAlnScanner::xVerifyAlignmentData(const ncbi::objects::CSequenceInfo&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp:92:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 92 | for (auto i=0; i < mSequences.size(); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:32: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp: In member function 'bool ncbi::objects::CAlnScanner::xSeqIdIsEqualToInfoAt(const std::string&, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp: In member function 'virtual void ncbi::objects::CAlnScanner::xVerifyAlignmentData(const ncbi::objects::CSequenceInfo&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp:92:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 92 | for (auto i=0; i < mSequences.size(); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~ +_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp -o aln_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp -o aln_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp -o aln_scanner.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp -o aln_scanner_fastagap.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp -o aln_scanner_clustal.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_nexus.cpp -o aln_scanner_nexus.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp: In member function 'bool ncbi::objects::CAlnScanner::xSeqIdIsEqualToInfoAt(const std::string&, int)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp:233:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 233 | if (index >= mSeqIds.size()) { | ~~~~~~^~~~~~~~~~~~~~~~~ @@ -23859,26 +23898,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:295:22: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] 295 | return (dataSize == (endOffset - startOffset + 1)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -23896,36 +23915,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp: In member function 'void ncbi::objects::CAlnScannerClustal::sProcessClustalDataLine(const std::vector >&, int, int, int, bool, int&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:296:27: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] - 296 | if (currentLineLength != blockLineLength) { - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp:52: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_nexus.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_nexus.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp: In function 'void ncbi::objects::AlnUtil::CheckId(const std::string&, const std::vector&, int, int, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_util.cpp:56:28: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 56 | if ((orderedIds.size() > idCount) && + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp: In member function 'void ncbi::CAlnReader::x_VerifyAlignmentInfo(const ncbi::objects::SAlignmentFile&, TReadFlags)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:409:29: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] 409 | for (int i=0; i< numDeflines; ++i) { @@ -23939,57 +23932,53 @@ 507 | if (i < m_DeflineInfo.size() && !m_DeflineInfo[i].mData.empty()) { | ~~^~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/ID2S_Reply_Get_Chunk_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/id2___.cpp:2: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp: In member function 'virtual void ncbi::objects::CAlnScannerFastaGap::xImportAlignmentData(ncbi::objects::CSequenceInfo&, ncbi::objects::CLineInput&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp:121:41: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] - 121 | if (currentDataSize != expectedDataSize) { - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp: In member function 'virtual void ncbi::objects::CAlnScannerPhylip::xImportAlignmentData(ncbi::objects::CSequenceInfo&, ncbi::objects::CLineInput&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp:129:27: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 129 | if (dataLineCount < mSequenceCount) { // in first block - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp: In member function 'virtual void ncbi::objects::CAlnScannerPhylip::xVerifyAlignmentData(const ncbi::objects::CSequenceInfo&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp:210:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 210 | if (mSequenceCount != mSeqIds.size()) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/ID2S_Reply_Get_Chunk_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/id2___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp:52: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp: In member function 'virtual void ncbi::objects::CAlnScannerFastaGap::xImportAlignmentData(ncbi::objects::CSequenceInfo&, ncbi::objects::CLineInput&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_fastagap.cpp:121:41: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] + 121 | if (currentDataSize != expectedDataSize) { + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp: In member function 'void ncbi::objects::CAlnScannerClustal::sProcessClustalDataLine(const std::vector >&, int, int, int, bool, int&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:296:27: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] + 296 | if (currentLineLength != blockLineLength) { + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_align_mapper.hpp:42, @@ -24023,15 +24012,201 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_types_ci.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_name.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_selector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/graph_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/graph_ci.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_align_mapper.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_loc_cvt.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_types_ci.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ 2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp -o aln_scanner_phylip.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp -o aln_scanner_sequin.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp -o aln_scanner_multalign.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_aln_builder.cpp -o fasta_aln_builder.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_reader_utils.cpp -o fasta_reader_utils.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/getfeature.cpp -o getfeature.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/graph_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/graph_ci.cpp:34: +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_nexus.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_nexus.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/table_field.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -24041,7 +24216,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_table_info.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/table_field.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -24057,13 +24233,54 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_info.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_info.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_table_info.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_info.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/track_data.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -24174,33 +24391,158 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_name.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_selector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_selector.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:38: +In member function 'void ncbi::objects::CScopeInfo_Base::RemoveInfoLock()', + inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:605:33, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::objects::CScopeInfo_RefBase::~CScopeInfo_RefBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:611:7, + inlined from 'ncbi::objects::CScopeInfo_Ref::~CScopeInfo_Ref()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:634:7, + inlined from 'ncbi::objects::CSeq_annot_Handle::~CSeq_annot_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_handle.hpp:100:27, + inlined from 'ncbi::objects::CSeq_graph_Handle ncbi::objects::CMappedGraph::GetSeq_graph_Handle() const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/graph_ci.cpp:95:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:570:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 570 | if ( m_LockCounter.Add(-1) <= 0 ) { + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::objects::CSeq_graph_Handle ncbi::objects::CMappedGraph::GetSeq_graph_Handle() const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +DEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_types_ci.cpp -o annot_types_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp -o seq_loc_cvt.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp -o annot_selector.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_descr_ci.cpp -o seq_descr_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp -o feat_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/graph_ci.cpp -o graph_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_object.cpp -o annot_object.o +/usr/bin/g++ -std=gnu++14 -c -WaIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_switch.cpp:168:12: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In destructor 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:142:41, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, + inlined from 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_switch.cpp:168:12: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In destructor 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', + inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, + inlined from 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_switch.cpp:168:12: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 91 | if ( m_LockCounter.Add(-1) <= 0 ) { + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In destructor 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:142:41, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, + inlined from 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_switch.cpp:168:12: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In destructor 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', + inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, + inlined from 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_switch.cpp:168:12: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 91 | if ( m_LockCounter.Add(-1) <= 0 ) { + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In destructor 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp: In member function 'virtual void ncbi::objects::CAlnScannerSequin::xImportAlignmentData(ncbi::objects::CSequenceInfo&, ncbi::objects::CLineInput&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:73:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 73 | if (lineInBlock != mSeqIds.size()) { @@ -24328,333 +24670,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_types_ci.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_align_mapper.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_loc_cvt.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp: In member function 'virtual void ncbi::objects::CAlnScannerMultAlign::xImportAlignmentData(ncbi::objects::CSequenceInfo&, ncbi::objects::CLineInput&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:125:37: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 125 | if (lineInBlock != expectedNumSequences) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:135:48: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 135 | if (!inFirstBlock && lineInBlock == expectedNumSequences) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_types_ci.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_info.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_selector.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:38: -In member function 'void ncbi::objects::CScopeInfo_Base::RemoveInfoLock()', - inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:605:33, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::objects::CScopeInfo_RefBase::~CScopeInfo_RefBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:611:7, - inlined from 'ncbi::objects::CScopeInfo_Ref::~CScopeInfo_Ref()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:634:7, - inlined from 'ncbi::objects::CSeq_annot_Handle::~CSeq_annot_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_handle.hpp:100:27, - inlined from 'ncbi::objects::CSeq_graph_Handle ncbi::objects::CMappedGraph::GetSeq_graph_Handle() const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/graph_ci.cpp:95:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:570:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 570 | if ( m_LockCounter.Add(-1) <= 0 ) { - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::objects::CSeq_graph_Handle ncbi::objects::CMappedGraph::GetSeq_graph_Handle() const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_switch.cpp:168:12: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In destructor 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:142:41, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, - inlined from 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_switch.cpp:168:12: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In destructor 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', - inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, - inlined from 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_switch.cpp:168:12: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 91 | if ( m_LockCounter.Add(-1) <= 0 ) { - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In destructor 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:142:41, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, - inlined from 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_switch.cpp:168:12: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In destructor 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', - inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, - inlined from 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_switch.cpp:168:12: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 91 | if ( m_LockCounter.Add(-1) <= 0 ) { - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In destructor 'ncbi::objects::{anonymous}::SSeq_align_Info::SMatch::~SMatch()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/table_field.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_table_info.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/table_field.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_info.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_table_info.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_info.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp: In member function 'virtual void ncbi::objects::CAlnScannerPhylip::xImportAlignmentData(ncbi::objects::CSequenceInfo&, ncbi::objects::CLineInput&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp:129:27: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 129 | if (dataLineCount < mSequenceCount) { // in first block + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp: In member function 'virtual void ncbi::objects::CAlnScannerPhylip::xVerifyAlignmentData(const ncbi::objects::CSequenceInfo&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_phylip.cpp:210:24: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 210 | if (mSequenceCount != mSeqIds.size()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:142:41, @@ -24758,6 +24781,64 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp: In member function 'virtual void ncbi::objects::CAlnScannerMultAlign::xImportAlignmentData(ncbi::objects::CSequenceInfo&, ncbi::objects::CLineInput&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:125:37: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 125 | if (lineInBlock != expectedNumSequences) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_multalign.cpp:135:48: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 135 | if (!inFirstBlock && lineInBlock == expectedNumSequences) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:62: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_reader.hpp:36: +In member function 'void ncbi::CObject::AddReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, + inlined from 'void ncbi::CRef::x_LockFromPtr() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1197:36, + inlined from 'ncbi::CRef::CRef(TObjectType*) [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:648:26, + inlined from 'ncbi::CRef ncbi::Ref(C*) [with C = objects::CSeq_id]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:2017:26, + inlined from 'void ncbi::CAlnReader::x_ParseAndValidateSeqIds(const ncbi::objects::SLineInfo&, TReadFlags, TIdList&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:363:26: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 494 | CheckReferenceOverflow(newCount - eCounterStep); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::CAlnReader::x_ParseAndValidateSeqIds(const ncbi::objects::SLineInfo&, TReadFlags, TIdList&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_base.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -24868,33 +24949,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -DEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_types_ci.cpp -o annot_types_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp -o seq_loc_cvt.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp -o annot_selector.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_descr_ci.cpp -o seq_descr_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/feat_ci.cpp -o feat_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/graph_ci.cpp -o graph_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_object.cpp -o annot_object.o -/usr/bin/g++ -std=gnu++14 -c -WaIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_info.cpp:62: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /src/objtools/readers/gff_reader.cpp -o gff_reader.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/track_data.cpp -o track_data.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_data.cpp -o reader_data.o @@ -24902,21 +24956,16 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/phrap.cpp -o phrap.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_base.cpp -o reader_base.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/readfeat.cpp -o readfeat.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_reader.hpp:36: -In member function 'void ncbi::CObject::AddReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, - inlined from 'void ncbi::CRef::x_LockFromPtr() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1197:36, - inlined from 'ncbi::CRef::CRef(TObjectType*) [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:648:26, - inlined from 'ncbi::CRef ncbi::Ref(C*) [with C = objects::CSeq_id]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:2017:26, - inlined from 'void ncbi::CAlnReader::x_ParseAndValidateSeqIds(const ncbi::objects::SLineInfo&, TReadFlags, TIdList&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:363:26: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 494 | CheckReferenceOverflow(newCount - eCounterStep); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::CAlnReader::x_ParseAndValidateSeqIds(const ncbi::objects::SLineInfo&, TReadFlags, TIdList&)': +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeqIdGenerator; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeqIdGenerator; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::objects::CFastaIdHandler::~CFastaIdHandler()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta_reader_utils.hpp:195:28, + inlined from 'ncbi::CAlnReader::CAlnReader(ncbi::CNcbiIstream&, FValidateIds)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:183:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CAlnReader::CAlnReader(ncbi::CNcbiIstream&, FValidateIds)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ @@ -24937,19 +24986,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeqIdGenerator; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeqIdGenerator; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::objects::CFastaIdHandler::~CFastaIdHandler()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta_reader_utils.hpp:195:28, - inlined from 'ncbi::CAlnReader::CAlnReader(ncbi::CNcbiIstream&, FValidateIds)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:183:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CAlnReader::CAlnReader(ncbi::CNcbiIstream&, FValidateIds)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -24974,13 +25010,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/gff_reader.hpp:71:44: note: declared here 71 | class NCBI_DEPRECATED NCBI_XOBJREAD_EXPORT CGFFReader | ^~~~~~~~~~ -ll -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_object_index.cpp -o annot_object_index.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_ci.cpp -o annot_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info.cpp -o tse_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info_object.cpp -o tse_info_object.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp -o seq_entry_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_base_info.cpp -o bioseq_base_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/buIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_ci.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -25008,11 +25038,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/rm_reader.cpp: In member function 'ncbi::CRef ncbi::objects::CRepeatToFeat::operator()(const ncbi::objects::IRepeatRegion&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/rm_reader.cpp:554:44: warning: enum constant in boolean context [-Wint-in-bool-context] - 554 | if (fRemoveRedundancy && m_Library && - | ^~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, +ll -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_object_index.cpp -o annot_object_index.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_ci.cpp -o annot_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info.cpp -o tse_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info_object.cpp -o tse_info_object.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp -o seq_entry_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_base_info.cpp -o bioseq_base_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/buIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; @@ -25029,37 +25061,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info_object.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info_object.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_base.cpp:99: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_base.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -25068,13 +25069,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/rm_reader.cpp -o rm_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/wiggle_reader.cpp -o wiggle_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff3_reader.cpp -o gff3_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gtf_reader.cpp -o gtf_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff3_location_merger.cpp -o gff3_location_merger.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gtf_location_merger.cpp -o gtf_location_merger.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -DIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info.cpp:44: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 103 | auto_ptr m_Indices; | ^~~~~~~~ @@ -25087,11 +25082,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/readfeat.cpp: In member function 'bool ncbi::objects::CFeatureTableReader_Imp::x_AddQualifierToCdregion(ncbi::CRef, ncbi::objects::CSeqFeatData&, EQual, const std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/readfeat.cpp:1406:22: warning: catching polymorphic type 'class ncbi::CStringException' by value [-Wcatch-value=] - 1406 | } catch( CStringException ) { - | ^~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info_object.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -25102,72 +25093,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/id2__.cpp -o id2__.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/id2___.cpp -o id2___.o -/bin/rm -f libid2.so .libid2.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libid2.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC id2__.o id2___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqsplit -lseq -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libid2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libid2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libid2.so -/bin/ln -f .id2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.id2.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -cd objtools/pubseq_gateway/client/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=psg_client UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/LIBUV.enabled', needed by 'requirements'. Stop. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -NOTE: skipping project "psg_client" due to unmet requirements -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_base_info.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_base_info.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_base_info.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info_object.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CTSE_Info_Object::CTSE_Info_Object(const ncbi::objects::CTSE_Info_Object&, TObjectCopyMap*)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info_object.cpp:60:21: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CTSE_Info_Object::CTSE_Info_Object(const ncbi::objects::CTSE_Info_Object&, TObjectCopyMap*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blast__.cpp -o blast__.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blast___.cpp -o blast___.o @@ -25180,47 +25109,47 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' cd objects/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xnetblastcli UNIX_PROJ="" sources= configurables=configurables.null -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast_unit_test_util UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast_unit_test_util UNIX_PROJ="" sources= configurables=configurables.null cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqalign_util UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast_app_util UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast TMPL=xnetblastcli -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=seqalign_util -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blast_app_util -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast TMPL=xnetblastcli -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=seqalign_util -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blast_unit_test_util -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blast_app_util -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, @@ -25508,22 +25437,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -25593,28 +25506,82 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/priority.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/rm_reader.cpp: In member function 'ncbi::CRef ncbi::objects::CRepeatToFeat::operator()(const ncbi::objects::IRepeatRegion&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/rm_reader.cpp:554:44: warning: enum constant in boolean context [-Wint-in-bool-context] + 554 | if (fRemoveRedundancy && m_Library && + | ^~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_info.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_info.cpp:37: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CTSE_Info_Object::CTSE_Info_Object(const ncbi::objects::CTSE_Info_Object&, TObjectCopyMap*)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_info_object.cpp:60:21: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CTSE_Info_Object::CTSE_Info_Object(const ncbi::objects::CTSE_Info_Object&, TObjectCopyMap*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/priority.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_base.cpp:99: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_base.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/rm_reader.cpp -o rm_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/wiggle_reader.cpp -o wiggle_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff3_reader.cpp -o gff3_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gtf_reader.cpp -o gtf_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff3_location_merger.cpp -o gff3_location_merger.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gtf_location_merger.cpp -o gtf_location_merger.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -DIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_base_info.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -25625,20 +25592,50 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_base_info.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_info.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_info.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_base_info.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_info.cpp:38: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/id2__.cpp -o id2__.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2/id2___.cpp -o id2___.o +/bin/rm -f libid2.so .libid2.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libid2.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC id2__.o id2___.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqsplit -lseq -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libid2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libid2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libid2.so +/bin/ln -f .id2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.id2.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +cd objtools/pubseq_gateway/client/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=psg_client UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/LIBUV.enabled', needed by 'requirements'. Stop. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +NOTE: skipping project "psg_client" due to unmet requirements +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/prefetch_impl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:34: @@ -25653,15 +25650,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -ild/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp -o bioseq_set_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_info.cpp -o bioseq_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_source.cpp -o data_source.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/priority.cpp -o priority.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp -o prefetch_impl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_manager.cpp -o prefetch_manager.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_manager_impl.cpp -o prefetch_manager_impl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+dsIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_source.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -25673,22 +25662,17 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/readfeat.cpp: In member function 'bool ncbi::objects::CFeatureTableReader_Imp::x_AddQualifierToCdregion(ncbi::CRef, ncbi::objects::CSeqFeatData&, EQual, const std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/readfeat.cpp:1406:22: warning: catching polymorphic type 'class ncbi::CStringException' by value [-Wcatch-value=] + 1406 | } catch( CStringException ) { + | ^~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_info.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -25696,79 +25680,21 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blastclient_.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/priority.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_base_info.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_info.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_info.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/gff_reader.hpp:48: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'std::pair, ncbi::CRef >::~pair()' at /usr/include/c++/12/bits/stl_pair.h:185:12, - inlined from 'virtual ncbi::CRef ncbi::objects::CGFFReader::x_ResolveID(const ncbi::objects::CSeq_id&, const TStr&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp:1300:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual ncbi::CRef ncbi::objects::CGFFReader::x_ResolveID(const ncbi::objects::CSeq_id&, const TStr&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Na_strand_.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Na_strand.hpp:42, @@ -25788,24 +25714,32 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_source.cpp:71: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_info.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +ild/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_info.cpp -o bioseq_set_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_info.cpp -o bioseq_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_source.cpp -o data_source.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/priority.cpp -o priority.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp -o prefetch_impl.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_manager.cpp -o prefetch_manager.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_manager_impl.cpp -o prefetch_manager_impl.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+dsIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blastclient_.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -25824,17 +25758,36 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/priority.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_source.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -25848,13 +25801,15 @@ /bin/ln -f libseqalign_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqalign_util.a /bin/ln -f .seqalign_util.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqalign_util.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_base_columns.cpp -o gff_base_columns.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_data.cpp -o gff2_data.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp -o gff2_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gvf_reader.cpp -o gvf_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/vcf_reader.cpp -o vcf_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_reader.cpp -o psl_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.1make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/blast/blastclient_.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/blast/blastclient.hpp:44, @@ -25872,19 +25827,49 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/heap_scope.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/heap_scope.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/heap_scope.cpp:41: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -25921,11 +25906,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_source.cpp:71: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -25944,6 +25925,28 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -25966,29 +25969,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_actions.cpp -o prefetch_actions.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope.cpp -o scope.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/heap_scope.cpp -o heap_scope.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp -o scope_impl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp -o scope_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp -o tse_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:37: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CRetryContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CRetryContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CRPCClientException::CRPCClientException(const ncbi::CDiagCompileInfo&, const ncbi::CException*, EErrCode, const std::string&, ncbi::EDiagSev)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/rpcbase_impl.hpp:177:5: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CRPCClientException::CRPCClientException(const ncbi::CDiagCompileInfo&, const ncbi::CException*, EErrCode, const std::string&, ncbi::EDiagSev)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -26011,18 +25994,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/heap_scope.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -26030,38 +26005,32 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/heap_scope.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/heap_scope.cpp:41: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp: In member function 'bool ncbi::objects::CGff2Reader::xGetStartsOnPlusStrand(ncbi::TSeqPos, const std::vector >&, bool, std::vector&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp:834:21: warning: comparison of integer expressions of different signedness: 'int' and 'const long unsigned int' [-Wsign-compare] - 834 | for (auto i=0; i >&, ncbi::objects::ENa_strand, ncbi::objects::ENa_strand, ncbi::TSeqPos, ncbi::TSeqPos, const ncbi::objects::CGff2Record&, ncbi::objects::CSeq_align_Base::C_Segs::TDenseg&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp:923:21: warning: comparison of integer expressions of different signedness: 'int' and 'const size_t' {aka 'const long unsigned int'} [-Wsign-compare] - 923 | for (auto i=0; i)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp:1008:21: warning: comparison of integer expressions of different signedness: 'int' and 'const long unsigned int' [-Wsign-compare] - 1008 | for (auto i=0; i class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/gff_reader.hpp:48: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'std::pair, ncbi::CRef >::~pair()' at /usr/include/c++/12/bits/stl_pair.h:185:12, + inlined from 'virtual ncbi::CRef ncbi::objects::CGFFReader::x_ResolveID(const ncbi::objects::CSeq_id&, const TStr&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp:1300:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual ncbi::CRef ncbi::objects::CGFFReader::x_ResolveID(const ncbi::objects::CSeq_id&, const TStr&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -26092,17 +26061,20 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blastclient.cpp -o blastclient.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blastclient_.cpp -o blastclient_.o -/bin/rm -f libxnetblastcli.so .libxnetblastcli.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxnetblastcli.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC blastclient.o blastclient_.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxnetblast -lxconnect -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxnetblastcli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxnetblastcli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxnetblastcli.so -/bin/ln -f .xnetblastcli.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xnetblastcli.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -cd objtools/blast/services/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast_services UNIX_PROJ="" sources= configurables=configurables.null +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:37: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CRetryContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CRetryContext; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CRPCClientException::CRPCClientException(const ncbi::CDiagCompileInfo&, const ncbi::CException*, EErrCode, const std::string&, ncbi::EDiagSev)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/rpcbase_impl.hpp:177:5: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CRPCClientException::CRPCClientException(const ncbi::CDiagCompileInfo&, const ncbi::CException*, EErrCode, const std::string&, ncbi::EDiagSev)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1554 | static auto_ptr m_GeneInfoReader; @@ -26110,14 +26082,44 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_actions.cpp -o prefetch_actions.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope.cpp -o scope.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/heap_scope.cpp -o heap_scope.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp -o scope_impl.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp -o scope_info.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp -o tse_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blastclient.cpp -o blastclient.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blast/blastclient_.cpp -o blastclient_.o +/bin/rm -f libxnetblastcli.so .libxnetblastcli.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxnetblastcli.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC blastclient.o blastclient_.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxnetblast -lxconnect -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxnetblastcli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxnetblastcli.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxnetblastcli.so +/bin/ln -f .xnetblastcli.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xnetblastcli.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +cd objtools/blast/services/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast_services UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' @@ -26125,27 +26127,47 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services TMPL=blast_services -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/prefetch_actions.hpp:39, @@ -26162,22 +26184,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_info.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -26190,7 +26196,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, +_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_base_columns.cpp -o gff_base_columns.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_data.cpp -o gff2_data.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp -o gff2_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gvf_reader.cpp -o gvf_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/vcf_reader.cpp -o vcf_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_reader.cpp -o psl_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.1In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_actions.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; @@ -26198,9 +26210,30 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_Data; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 181 | auto_ptr m_OptionsBuilder; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26226,6 +26259,14 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -26235,7 +26276,22 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; | ^~~~~~~~ @@ -26245,67 +26301,54 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_info.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included fr/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/vcf_reader.cpp: In member function 'virtual void ncbi::objects::CVcfReader::xSetFileFormat(const std::string&, ncbi::objects::CSeq_annot&, bool&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/vcf_reader.cpp:332:27: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=] - 332 | catch (std::exception except) { - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +om /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/heap_scope.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -26326,34 +26369,39 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -26366,42 +26414,42 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_reader.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_set_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_set.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:42: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual void ncbi::objects::CPslReader::xProcessData(const ncbi::objects::CReaderBase::TReaderData&, ncbi::objects::CSeq_annot&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_reader.cpp:78:5: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CRef TestUtil::FlattenSeqAlignSet(const ncbi::objects::CSeq_align_set&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.cpp:112:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::objects::CPslReader::xProcessData(const ncbi::objects::CReaderBase::TReaderData&, ncbi::objects::CSeq_annot&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'ncbi::CRef TestUtil::FlattenSeqAlignSet(const ncbi::objects::CSeq_align_set&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp: In member function 'void ncbi::objects::CPslData::Initialize(const ncbi::objects::CReaderBase::TReaderLine&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp:144:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 144 | if (mBlockCount != mBlockSizes.size()) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp:150:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 150 | if (mBlockCount != mBlockStartsQ.size()) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp:156:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 156 | if (mBlockCount != mBlockStartsT.size()) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:58: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/heap_scope.cpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_info.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26420,12 +26468,51 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp: In function 'void ncbi::CheckMTByQueries_DBSize(CRef&, const blast::CBlastOptions&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:1011:18: warning: unused variable 'prog' [-Wunused-variable] + 1011 | EProgram prog = opt.GetProgram(); + | ^~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp: In member function 'bool ncbi::objects::CGff2Reader::xGetStartsOnPlusStrand(ncbi::TSeqPos, const std::vector >&, bool, std::vector&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp:834:21: warning: comparison of integer expressions of different signedness: 'int' and 'const long unsigned int' [-Wsign-compare] + 834 | for (auto i=0; i >&, ncbi::objects::ENa_strand, ncbi::objects::ENa_strand, ncbi::TSeqPos, ncbi::TSeqPos, const ncbi::objects::CGff2Record&, ncbi::objects::CSeq_align_Base::C_Segs::TDenseg&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp:923:21: warning: comparison of integer expressions of different signedness: 'int' and 'const size_t' {aka 'const long unsigned int'} [-Wsign-compare] + 923 | for (auto i=0; i)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff2_reader.cpp:1008:21: warning: comparison of integer expressions of different signedness: 'int' and 'const long unsigned int' [-Wsign-compare] + 1008 | for (auto i=0; i class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_map.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -26441,35 +26528,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_Data; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 181 | auto_ptr m_OptionsBuilder; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp: In member function 'bool ncbi::objects::CAutoSqlStandardFields::ContainsInfo() const': @@ -26478,6 +26536,14 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 | mColName + mColScore != -6); | ~~~~~~~~~~~~~~~~~~~~~^~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp: In member function 'virtual bool ncbi::objects::CBedReader::xDetermineLikelyColumnCount(ncbi::objects::CLinePreBuffer&, ncbi::objects::ILineErrorListener*)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp:484:35: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 484 | if (blockSizes.size() != blockCount) { @@ -26485,77 +26551,88 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp:505:36: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 505 | if (blockStarts.size() != blockCount) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp:33: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.cpp -o test_objmgr.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.cpp -o blast_test_util.o +/bin/rm -f libblast_unit_test_util.a .libblast_unit_test_util.a.stamp +ar cr libblast_unit_test_util.a test_objmgr.o blast_test_util.o +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast_unit_test_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblast_unit_test_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast_unit_test_util.a +/bin/ln -f .blast_unit_test_util.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast_unit_test_util.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_ci.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_ci.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp: In member function 'bool ncbi::objects::CAutoSqlStandardFields::ContainsInfo() const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp:92:34: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] - 91 | return (mColChrom + mColSeqStart + mColSeqStop + mColStrand + - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 92 | mColName + mColScore != -6); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_impl.cpp:58: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp: In member function 'void ncbi::objects::CPslData::Initialize(const ncbi::objects::CReaderBase::TReaderLine&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp:144:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 144 | if (mBlockCount != mBlockSizes.size()) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp:150:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 150 | if (mBlockCount != mBlockStartsQ.size()) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp:156:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 156 | if (mBlockCount != mBlockStartsT.size()) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp: At global scope: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:127:15: warning: 'std::string ncbi::s_FindBlastDbDataLoaderName(const std::string&, bool)' defined but not used [-Wunused-function] + 127 | static string s_FindBlastDbDataLoaderName(const string& dbname, bool is_protein) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_ci.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_map.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_map_ci.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_ci.cpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -26571,9 +26648,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/vcf_reader.cpp: In member function 'virtual void ncbi::objects::CVcfReader::xSetFileFormat(const std::string&, ncbi::objects::CSeq_annot&, bool&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/vcf_reader.cpp:332:27: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=] + 332 | catch (std::exception except) { + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_ci.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26586,7 +26667,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_map.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_map_ci.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_ci.cpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -26602,43 +26684,61 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_set_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_set.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_reader.cpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CRef TestUtil::FlattenSeqAlignSet(const ncbi::objects::CSeq_align_set&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.cpp:112:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual void ncbi::objects::CPslReader::xProcessData(const ncbi::objects::CReaderBase::TReaderData&, ncbi::objects::CSeq_annot&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_reader.cpp:78:5: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'ncbi::CRef TestUtil::FlattenSeqAlignSet(const ncbi::objects::CSeq_align_set&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::objects::CPslReader::xProcessData(const ncbi::objects::CReaderBase::TReaderData&, ncbi::objects::CSeq_annot&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -2.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp -o psl_data.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp -o bed_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp -o bed_autosql.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp -o bed_autosql_standard.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_custom.cpp -o bed_autosql_custom.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_column_data.cpp -o bed_column_data.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp: In member function 'bool ncbi::objects::CAutoSqlStandardFields::ContainsInfo() const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp:92:34: warning: comparison of integer expressions of different signedness: 'long unsigned int' and 'int' [-Wsign-compare] + 91 | return (mColChrom + mColSeqStart + mColSeqStop + mColStrand + + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 92 | mColName + mColScore != -6); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -26658,7 +26758,20 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 | mColName + mColScore != -6); | ~~~~~~~~~~~~~~~~~~~~~^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp: In member function 'bool ncbi::objects::CAutoSqlStandardFields::SetLocation(const ncbi::objects::CBedColumnData&, int, ncbi::objects::CSeq_feat&, ncbi::objects::CReaderMessageHandler&) const': +ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp -o seq_map.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_ci.cpp -o seq_map_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_ci.cpp -o seq_entry_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_ci.cpp -o seq_annot_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_ci.cpp -o seq_table_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp -o seq_entry_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp -o bioseq_set_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=62.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/psl_data.cpp -o psl_data.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_reader.cpp -o bed_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.cpp -o bed_autosql.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp -o bed_autosql_standard.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_custom.cpp -o bed_autosql_custom.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_column_data.cpp -o bed_column_data.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp: In member function 'bool ncbi::objects::CAutoSqlStandardFields::SetLocation(const ncbi::objects::CBedColumnData&, int, ncbi::objects::CSeq_feat&, ncbi::objects::CReaderMessageHandler&) const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp:127:20: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const long unsigned int'} and 'int' [-Wsign-compare] 127 | if (mColStrand == -1) { | ~~~~~~~~~~~^~~~~ @@ -26695,38 +26808,140 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp:209:19: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const long unsigned int'} and 'int' [-Wsign-compare] 209 | if (mColScore != -1) { | ~~~~~~~~~~^~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_ci.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_ci.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_ci.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_ci.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_ci.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_interval_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_interval.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp:34: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'bool ncbi::objects::CAutoSqlStandardFields::SetLocation(const ncbi::objects::CBedColumnData&, int, ncbi::objects::CSeq_feat&, ncbi::objects::CReaderMessageHandler&) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp:151:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'bool ncbi::objects::CAutoSqlStandardFields::SetLocation(const ncbi::objects::CBedColumnData&, int, ncbi::objects::CSeq_feat&, ncbi::objects::CReaderMessageHandler&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:40: +In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', + inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, + inlined from 'ncbi::objects::CBioseq_Handle ncbi::objects::CTSE_Handle::GetBioseqHandle(const ncbi::objects::CSeq_id&) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp:219:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 91 | if ( m_LockCounter.Add(-1) <= 0 ) { + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::objects::CBioseq_Handle ncbi::objects::CTSE_Handle::GetBioseqHandle(const ncbi::objects::CSeq_id&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_table_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_ci.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_ci.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp: In function 'void ncbi::CheckMTByQueries_DBSize(CRef&, const blast::CBlastOptions&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:1011:18: warning: unused variable 'prog' [-Wunused-variable] - 1011 | EProgram prog = opt.GetProgram(); - | ^~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -26735,16 +26950,26 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.cpp -o test_objmgr.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.cpp -o blast_test_util.o -/bin/rm -f libblast_unit_test_util.a .libblast_unit_test_util.a.stamp -ar cr libblast_unit_test_util.a test_objmgr.o blast_test_util.o -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast_unit_test_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblast_unit_test_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast_unit_test_util.a -/bin/ln -f .blast_unit_test_util.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast_unit_test_util.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_edit_commands.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 276 | auto_ptr m_Memeto; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_Memeto; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:367:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | auto_ptr m_Memeto; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_custom.cpp:40: @@ -26758,37 +26983,44 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:40: -In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', - inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, - inlined from 'ncbi::objects::CBioseq_Handle ncbi::objects::CTSE_Handle::GetBioseqHandle(const ncbi::objects::CSeq_id&) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_handle.cpp:219:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 91 | if ( m_LockCounter.Add(-1) <= 0 ) { - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::objects::CBioseq_Handle ncbi::objects::CTSE_Handle::GetBioseqHandle(const ncbi::objects::CSeq_id&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_interval_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_interval.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp:34: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'bool ncbi::objects::CAutoSqlStandardFields::SetLocation(const ncbi::objects::CBedColumnData&, int, ncbi::objects::CSeq_feat&, ncbi::objects::CReaderMessageHandler&) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp:151:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'bool ncbi::objects::CAutoSqlStandardFields::SetLocation(const ncbi::objects::CBedColumnData&, int, ncbi::objects::CSeq_feat&, ncbi::objects::CReaderMessageHandler&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_set_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services/blast_services.cpp -o blast_services.o +/bin/rm -f libblast_services.so .libblast_services.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libblast_services.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC blast_services.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxnetblastcli -lxnetblast -lxser -lxconnect -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast_services.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblast_services.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast_services.so +/bin/ln -f .blast_services.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast_services.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_custom.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.hpp: In member function 'bool ncbi::objects::CAutoSqlStandardFields::ContainsInfo() const': @@ -26907,44 +27139,24 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map.cpp -o seq_map.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_map_ci.cpp -o seq_map_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_ci.cpp -o seq_entry_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_ci.cpp -o seq_annot_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_ci.cpp -o seq_table_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp -o seq_entry_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp -o bioseq_set_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=6In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp: At global scope: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp:127:15: warning: 'std::string ncbi::s_FindBlastDbDataLoaderName(const std::string&, bool)' defined but not used [-Wunused-function] - 127 | static string s_FindBlastDbDataLoaderName(const string& dbname, bool is_protein) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ -blast+-2.12.0+ds/c++/src/objtools/readers/best_feat_finder.cpp -o best_feat_finder.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp -o source_mod_parser.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_exception.cpp -o fasta_exception.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_converter.cpp -o agp_converter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/ucscregion_reader.cpp -o ucscregion_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/struct_cmt_reader.cpp -o struct_cmt_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp -o mod_reader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -WnoIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_ci.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_ci.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26954,7 +27166,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_ci.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -26970,38 +27183,17 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_table_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_table_ci.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_ci.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/align_ci.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/align_ci.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -27009,10 +27201,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/align_ci.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -27029,60 +27218,22 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_set_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_edit_commands.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_handle.cpp:48: +blast+-2.12.0+ds/c++/src/objtools/readers/best_feat_finder.cpp -o best_feat_finder.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp -o source_mod_parser.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/fasta_exception.cpp -o fasta_exception.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_converter.cpp -o agp_converter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/ucscregion_reader.cpp -o ucscregion_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/struct_cmt_reader.cpp -o struct_cmt_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp -o mod_reader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -WnoIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_set_edit_commands.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 276 | auto_ptr m_Memeto; | ^~~~~~~~ @@ -27101,49 +27252,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp: In function 'void ncbi::objects::s_GetPrimerInfo(const CSourceModParser::SMod*, const CSourceModParser::SMod*, std::vector, std::__cxx11::basic_string > >&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp:877:20: warning: comparison of integer expressions of different signedness: 'int' and 'const long unsigned int' [-Wsign-compare] - 877 | for (int i=0; i&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp:912:25: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] - 912 | for (auto i=0; i class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -27180,7 +27303,14 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, +4 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_handle.cpp -o bioseq_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp -o seq_annot_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/align_ci.cpp -o align_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp -o data_loader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range.cpp -o handle_range.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/objmgr_exception.cpp -o objmgr_exception.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range_map.cpp -o handle_range_map.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; @@ -27196,8 +27326,8 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_set_edit_commands.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:43: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_edit_commands.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 276 | auto_ptr m_Memeto; | ^~~~~~~~ @@ -27216,21 +27346,20 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp: In function 'void ncbi::objects::s_GetPrimerInfo(const CSourceModParser::SMod*, const CSourceModParser::SMod*, std::vector, std::__cxx11::basic_string > >&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp:877:20: warning: comparison of integer expressions of different signedness: 'int' and 'const long unsigned int' [-Wsign-compare] + 877 | for (int i=0; i&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp:912:25: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] + 912 | for (auto i=0; i class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -27239,52 +27368,34 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/descr_mod_apply.cpp:66: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/descr_mod_apply.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/source_mod_parser.cpp:922:24: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] + 922 | for (int i=0; i class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -4 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_handle.cpp -o bioseq_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp -o seq_annot_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/align_ci.cpp -o align_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp -o data_loader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range.cpp -o handle_range.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/objmgr_exception.cpp -o objmgr_exception.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range_map.cpp -o handle_range_map.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_edit_commands.hpp:40, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_edit_commands.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_handle.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 276 | auto_ptr m_Memeto; @@ -27305,18 +27416,11 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -27334,7 +27438,8 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/message_listener.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -27342,16 +27447,21 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/message_listener.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/message_listener.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/object_manager.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -27370,107 +27480,46 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/align_ci.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/align_ci.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/align_ci.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_edit_commands.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_annot_handle.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 276 | auto_ptr m_Memeto; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_Memeto; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:367:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | auto_ptr m_Memeto; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp:40: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp -o blast_app_util.o +/bin/rm -f libblast_app_util.a .libblast_app_util.a.stamp +ar cr libblast_app_util.a blast_app_util.o +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast_app_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblast_app_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast_app_util.a +/bin/ln -f .blast_app_util.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast_app_util.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_handle.hpp:38: +In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', + inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, + inlined from 'std::pair::~pair()' at /usr/include/c++/12/bits/stl_pair.h:185:12, + inlined from 'ncbi::objects::CBioObjectId::~CBioObjectId()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bio_object_id.hpp:42:7, + inlined from 'void ncbi::objects::CRemove_EditCommand::Undo() [with TEditHandle = ncbi::objects::CSeq_annot_EditHandle]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:535:5: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 91 | if ( m_LockCounter.Add(-1) <= 0 ) { + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CRemove_EditCommand::Undo() [with TEditHandle = ncbi::objects::CSeq_annot_EditHandle]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range_map.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/object_manager.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Na_strand_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Na_strand.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/handle_range.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/handle_range_map.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range_map.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -27482,66 +27531,21 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Bioseq_set_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Bioseq_set.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:34: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from '_OIter std::transform(_IIter, _IIter, _OIter, _UnaryOperation) [with _IIter = _List_iterator<__cxx11::basic_string >; _OIter = back_insert_iterator<__cxx11::list > >; _UnaryOperation = ncbi::objects::CModAdder::x_SetHist(const TModEntry&, ncbi::objects::CSeq_inst&)::]' at /usr/include/c++/12/bits/stl_algo.h:4263:12, - inlined from 'static void ncbi::objects::CModAdder::x_SetHist(const TModEntry&, ncbi::objects::CSeq_inst&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:681:14: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In static member function 'static void ncbi::objects::CModAdder::x_SetHist(const TModEntry&, ncbi::objects::CSeq_inst&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range_map.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/descr_mod_apply.cpp:66: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Na_strand_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Na_strand.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/handle_range.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/handle_range_map.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/handle_range_map.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/descr_mod_apply.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_handle.hpp:38: -In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', - inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, - inlined from 'std::pair::~pair()' at /usr/include/c++/12/bits/stl_pair.h:185:12, - inlined from 'ncbi::objects::CBioObjectId::~CBioObjectId()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bio_object_id.hpp:42:7, - inlined from 'void ncbi::objects::CRemove_EditCommand::Undo() [with TEditHandle = ncbi::objects::CSeq_annot_EditHandle]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:535:5: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 91 | if ( m_LockCounter.Add(-1) <= 0 ) { - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CRemove_EditCommand::Undo() [with TEditHandle = ncbi::objects::CSeq_annot_EditHandle]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -27599,6 +27603,14 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_vector.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; @@ -27606,6 +27618,21 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/message_listener.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/message_listener.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/message_listener.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -27620,16 +27647,7 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seqdesc_ci.cpp -o seqdesc_ci.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp -o tse_split_info.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp -o tse_chunk_info.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.cpp -o blast_app_util.o -/bin/rm -f libblast_app_util.a .libblast_app_util.a.stamp -ar cr libblast_app_util.a blast_app_util.o -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast_app_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblast_app_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast_app_util.a -/bin/ln -f .blast_app_util.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast_app_util.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seqdesc_ci.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -27661,6 +27679,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Bioseq_set_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Bioseq_set.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:34: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from '_OIter std::transform(_IIter, _IIter, _OIter, _UnaryOperation) [with _IIter = _List_iterator<__cxx11::basic_string >; _OIter = back_insert_iterator<__cxx11::list > >; _UnaryOperation = ncbi::objects::CModAdder::x_SetHist(const TModEntry&, ncbi::objects::CSeq_inst&)::]' at /usr/include/c++/12/bits/stl_algo.h:4263:12, + inlined from 'static void ncbi::objects::CModAdder::x_SetHist(const TModEntry&, ncbi::objects::CSeq_inst&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:681:14: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In static member function 'static void ncbi::objects::CModAdder::x_SetHist(const TModEntry&, ncbi::objects::CSeq_inst&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, @@ -27675,7 +27711,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -27685,28 +27721,58 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_split_info.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_chunk_info.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp -o bioseq_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_type_index.cpp -o annot_type_index.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp -o seq_loc_mapper.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp -o seq_align_mapper.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp -o annot_collector.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader_factory.cpp -o data_loader_factory.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/mapped_feat.cpp -o mapped_feat.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/shIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:41: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:41: In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, @@ -27742,7 +27808,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -27752,36 +27818,37 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_chunk_info.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_split_info.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader_factory.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader_factory.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_split_info.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader_factory.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_chunk_info.cpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -27791,8 +27858,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -27808,38 +27874,16 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader_factory.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader_factory.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_loc_mapper.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader_factory.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -27870,29 +27914,39 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ --format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_error.cpp -o mod_error.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/descr_mod_apply.cpp -o descr_mod_apply.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/feature_mod_apply.cpp -o feature_mod_apply.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_to_enum.cpp -o mod_to_enum.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/message_listener.cpp -o message_listener.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/line_error.cpp -o line_error.o -/bin/rm -f libxobjread.so .libxobjread.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxobjread.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_type_index.cpp:41: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_type_index.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_ci.cpp -o bioseq_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_type_index.cpp -o annot_type_index.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp -o seq_loc_mapper.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp -o seq_align_mapper.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp -o annot_collector.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/data_loader_factory.cpp -o data_loader_factory.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/mapped_feat.cpp -o mapped_feat.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/shIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -27900,9 +27954,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_loc_mapper.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -27949,25 +28002,29 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/mapped_feat.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp: In member function 'virtual ncbi::objects::CSeq_align_Mapper_Base* ncbi::objects::CSeq_align_Mapper::CreateSubAlign(const ncbi::objects::CSpliced_seg&, const ncbi::objects::CSpliced_exon&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp:466:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 466 | auto_ptr sub(new CSeq_align_Mapper(GetLocMapper())); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -27985,18 +28042,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp: In member function 'virtual ncbi::objects::CSeq_align_Mapper_Base* ncbi::objects::CSeq_align_Mapper::CreateSubAlign(const ncbi::objects::CSpliced_seg&, const ncbi::objects::CSpliced_exon&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_mapper.cpp:466:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 466 | auto_ptr sub(new CSeq_align_Mapper(GetLocMapper())); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -28022,12 +28070,76 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -openmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC reader_message.o reader_listener.o reader_message_handler.o read_util.o format_guess_ex.o seqid_validate.o acc_pattern.o agp_read.o agp_seq_entry.o agp_util.o agp_validate_reader.o cigar.o fasta.o aln_formats.o alnread.o aln_errors.o aln_error_reporter.o aln_formatguess.o aln_util.o aln_reader.o aln_scanner.o aln_scanner_fastagap.o aln_scanner_clustal.o aln_scanner_nexus.o aln_scanner_phylip.o aln_scanner_sequin.o aln_scanner_multalign.o fasta_aln_builder.o fasta_reader_utils.o getfeature.o gff_reader.o track_data.o reader_data.o microarray_reader.o phrap.o reader_base.o readfeat.o rm_reader.o wiggle_reader.o gff3_reader.o gtf_reader.o gff3_location_merger.o gtf_location_merger.o gff_base_columns.o gff2_data.o gff2_reader.o gvf_reader.o vcf_reader.o psl_reader.o psl_data.o bed_reader.o bed_autosql.o bed_autosql_standard.o bed_autosql_custom.o bed_column_data.o best_feat_finder.o source_mod_parser.o fasta_exception.o agp_converter.o ucscregion_reader.o struct_cmt_reader.o mod_reader.o mod_error.o descr_mod_apply.o feature_mod_apply.o mod_to_enum.o message_listener.o line_error.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lsubmit -lseqset -lseq -lseqcode -lsequtil -lgeneral -lxutil -lxlogging -lpub -lxser -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxobjread.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxobjread.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjread.so -/bin/ln -f .xobjread.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjread.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_mapper.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_handle.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:42: +In member function 'void ncbi::objects::CScopeInfo_Base::RemoveInfoLock()', + inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:605:33, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::objects::CScopeInfo_RefBase::~CScopeInfo_RefBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:611:7, + inlined from 'ncbi::objects::CScopeInfo_Ref::~CScopeInfo_Ref()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:634:7, + inlined from 'ncbi::objects::CSeq_annot_Handle::~CSeq_annot_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_handle.hpp:100:27, + inlined from 'ncbi::objects::CSeq_feat_Handle::CSeq_feat_Handle(const ncbi::objects::CSeq_feat_Handle&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:75:27, + inlined from 'ncbi::objects::CMappedFeat::CMappedFeat(const ncbi::objects::CSeq_feat_Handle&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/mapped_feat.cpp:48:28: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:570:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 570 | if ( m_LockCounter.Add(-1) <= 0 ) { + | ^~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CMappedFeat::CMappedFeat(const ncbi::objects::CSeq_feat_Handle&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +are/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp -o seq_feat_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp -o seq_graph_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp -o seq_align_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_assigner.cpp -o tse_assigner.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction.cpp -o scope_transaction.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp -o scope_transaction_impl.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncb-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_error.cpp -o mod_error.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/descr_mod_apply.cpp -o descr_mod_apply.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/feature_mod_apply.cpp -o feature_mod_apply.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_to_enum.cpp -o mod_to_enum.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/message_listener.cpp -o message_listener.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/line_error.cpp -o line_error.o +/bin/rm -f libxobjread.so .libxobjread.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxobjread.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:43: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edit_commands_impl.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -28056,8 +28168,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/mapped_feat.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -28065,7 +28177,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -28081,6 +28195,15 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 103 | auto_ptr m_Indices; @@ -28102,100 +28225,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_handle.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:42: -In member function 'void ncbi::objects::CScopeInfo_Base::RemoveInfoLock()', - inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:605:33, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::objects::CScopeInfo_RefBase::~CScopeInfo_RefBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:611:7, - inlined from 'ncbi::objects::CScopeInfo_Ref::~CScopeInfo_Ref()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:634:7, - inlined from 'ncbi::objects::CSeq_annot_Handle::~CSeq_annot_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_handle.hpp:100:27, - inlined from 'ncbi::objects::CSeq_feat_Handle::CSeq_feat_Handle(const ncbi::objects::CSeq_feat_Handle&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:75:27, - inlined from 'ncbi::objects::CMappedFeat::CMappedFeat(const ncbi::objects::CSeq_feat_Handle&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/mapped_feat.cpp:48:28: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:570:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 570 | if ( m_LockCounter.Add(-1) <= 0 ) { - | ^~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CMappedFeat::CMappedFeat(const ncbi::objects::CSeq_feat_Handle&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_edit_commands.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 276 | auto_ptr m_Memeto; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_Memeto; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:367:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | auto_ptr m_Memeto; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -are/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp -o seq_feat_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp -o seq_graph_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp -o seq_align_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_assigner.cpp -o tse_assigner.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction.cpp -o scope_transaction.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp -o scope_transaction_impl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_align_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -28205,7 +28237,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_graph_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -28222,77 +28255,63 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:43: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edit_commands_impl.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_align_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_edit_commands.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_edit_commands.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_edit_commands.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -28321,7 +28340,7 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_edit_commands.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_feat_handle.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 276 | auto_ptr m_Memeto; | ^~~~~~~~ @@ -28340,32 +28359,23 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_edit_commands.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_edit_commands.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_graph_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_edit_commands.cpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -28377,12 +28387,19 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_assigner.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_edit_commands.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_edit_commands.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr m_Sub_I; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_edit_commands.hpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -28395,23 +28412,16 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 153 | auto_ptr m_Sub_I; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_assigner.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -28438,6 +28448,22 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, @@ -28450,19 +28476,31 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_transaction_impl.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_edit_commands.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_edit_commands.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr m_Sub_I; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_annot_edit_commands.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_align_handle.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 276 | auto_ptr m_Memeto; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_Memeto; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:367:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | auto_ptr m_Memeto; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_edit_commands.hpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -28482,14 +28520,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -28498,14 +28528,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -i-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edit_commands_impl.cpp -o edit_commands_impl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_edit_commands.cpp -o bioseq_edit_commands.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_edit_commands.cpp -o seq_entry_edit_commands.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_edit_commands.cpp -o bioseq_set_edit_commands.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edit_saver.cpp -o edit_saver.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/unsupp_editsaver.cpp -o unsupp_editsaver.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edits_db_engine.cpp -o edits_db_engine.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; @@ -28513,21 +28536,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 276 | auto_ptr m_Memeto; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_Memeto; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:367:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | auto_ptr m_Memeto; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp: In member function 'virtual void ncbi::objects::CScopeTransaction_Impl::Commit()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp:167:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 167 | auto_ptr cmd(new CMultEditCommand); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -28573,10 +28585,21 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp: In member function 'virtual void ncbi::objects::CScopeTransaction_Impl::Commit()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/scope_transaction_impl.cpp:167:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 167 | auto_ptr cmd(new CMultEditCommand); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:276:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 276 | auto_ptr m_Memeto; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_Memeto; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/edit_commands_impl.hpp:367:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | auto_ptr m_Memeto; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -28614,7 +28637,28 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_edit_commands.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::IEditCommand; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::IEditCommand; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual void ncbi::objects::CResetIds_EditCommand::Do(ncbi::objects::IScopeTransaction_Impl&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_edit_commands.cpp:58:23: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::objects::CResetIds_EditCommand::Do(ncbi::objects::IScopeTransaction_Impl&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +i-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edit_commands_impl.cpp -o edit_commands_impl.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_edit_commands.cpp -o bioseq_edit_commands.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_entry_edit_commands.cpp -o seq_entry_edit_commands.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_edit_commands.cpp -o bioseq_set_edit_commands.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edit_saver.cpp -o edit_saver.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/unsupp_editsaver.cpp -o unsupp_editsaver.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edits_db_engine.cpp -o edits_db_engine.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/scope_impl.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; @@ -28648,20 +28692,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/bioseq_edit_commands.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::IEditCommand; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::IEditCommand; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual void ncbi::objects::CResetIds_EditCommand::Do(ncbi::objects::IScopeTransaction_Impl&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_edit_commands.cpp:58:23: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::objects::CResetIds_EditCommand::Do(ncbi::objects::IScopeTransaction_Impl&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/edits_db_saver.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -28716,6 +28746,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +openmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC reader_message.o reader_listener.o reader_message_handler.o read_util.o format_guess_ex.o seqid_validate.o acc_pattern.o agp_read.o agp_seq_entry.o agp_util.o agp_validate_reader.o cigar.o fasta.o aln_formats.o alnread.o aln_errors.o aln_error_reporter.o aln_formatguess.o aln_util.o aln_reader.o aln_scanner.o aln_scanner_fastagap.o aln_scanner_clustal.o aln_scanner_nexus.o aln_scanner_phylip.o aln_scanner_sequin.o aln_scanner_multalign.o fasta_aln_builder.o fasta_reader_utils.o getfeature.o gff_reader.o track_data.o reader_data.o microarray_reader.o phrap.o reader_base.o readfeat.o rm_reader.o wiggle_reader.o gff3_reader.o gtf_reader.o gff3_location_merger.o gtf_location_merger.o gff_base_columns.o gff2_data.o gff2_reader.o gvf_reader.o vcf_reader.o psl_reader.o psl_data.o bed_reader.o bed_autosql.o bed_autosql_standard.o bed_autosql_custom.o bed_column_data.o best_feat_finder.o source_mod_parser.o fasta_exception.o agp_converter.o ucscregion_reader.o struct_cmt_reader.o mod_reader.o mod_error.o descr_mod_apply.o feature_mod_apply.o mod_to_enum.o message_listener.o line_error.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lsubmit -lseqset -lseq -lseqcode -lsequtil -lgeneral -lxutil -lxlogging -lpub -lxser -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxobjread.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxobjread.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjread.so +/bin/ln -f .xobjread.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjread.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:606:41, @@ -28805,109 +28841,109 @@ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' cd objtools/blast/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqdb UNIX_PROJ="" sources= configurables=configurables.null cd objmgr/util/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=util UNIX_PROJ="" sources= configurables=configurables.null -cd algo/dustmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgodustmask UNIX_PROJ="" sources= configurables=configurables.null -cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +cd algo/dustmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgodustmask UNIX_PROJ="" sources= configurables=configurables.null make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/segmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgosegmask UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objmgr/split/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=id2_split UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd algo/segmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgosegmask UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objmgr/split/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=id2_split UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util TMPL=util -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask TMPL=xalgodustmask -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader TMPL=seqdb -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util TMPL=util -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask TMPL=xalgodustmask -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/segmask TMPL=xalgosegmask -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split TMPL=id2_split -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank TMPL=ncbi_xreader -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split TMPL=id2_split -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank TMPL=ncbi_xreader -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/segmask TMPL=xalgosegmask -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdb.cpp -o seqdb.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbbitset.cpp -o seqdbbitset.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbfilter.cpp -o seqdbfilter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp -o seqdbatlas.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbalias.cpp -o seqdbalias.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp -o seqdbcommon.o -/usr/bin/g++ -std=make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp -o weight.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp -o sequence.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp -o feature.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp -o indexer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp -o seqtitle.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp -o create_defline.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILEmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter.cpp -o blob_splitter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_params.cpp -o blob_splitter_params.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/split_blob.cpp -o split_blob.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp -o blob_splitter_impl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_parser.cpp -o blob_splitter_parser.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_maker.cpp -o blob_splitter_maker.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILEmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/dispatcher.cpp -o dispatcher.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader.cpp -o reader.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/writer.cpp -o writer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp -o processors.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/wgsmaster.cpp -o wgsmaster.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_snp.cpp -o reader_snp.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share//build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/blob_id.cpp: In constructor 'ncbi::objects::CBlob_id::CBlob_id(ncbi::CTempString)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/blob_id.cpp:51:12: warning: catching polymorphic type 'class ncbi::CStringException' by value [-Wcatch-value=] - 51 | catch (CStringException) { - | ^~~~~~~~~~~~~~~~ +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdb.cpp -o seqdb.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbbitset.cpp -o seqdbbitset.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbfilter.cpp -o seqdbfilter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp -o seqdbatlas.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbalias.cpp -o seqdbalias.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp -o seqdbcommon.o +/usr/bin/g++ -std=make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter.cpp -o blob_splitter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_params.cpp -o blob_splitter_params.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/split_blob.cpp -o split_blob.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp -o blob_splitter_impl.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_parser.cpp -o blob_splitter_parser.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_maker.cpp -o blob_splitter_maker.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkmake[5]: warning: -j12 forced in submake: resetting jobserver mode. g/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/id_range.cpp -o id_range.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/object_splitinfo.cpp -o object_splitinfo.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/asn_sizer.cpp -o asn_sizer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/annot_piece.cpp -o annot_piece.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/chunk_info.cpp -o chunk_info.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/size.cpp -o size.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:36: +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/blob_id.cpp: In constructor 'ncbi::objects::CBlob_id::CBlob_id(ncbi::CTempString)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/blob_id.cpp:51:12: warning: catching polymorphic type 'class ncbi::CStringException' by value [-Wcatch-value=] + 51 | catch (CStringException) { + | ^~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -28956,8 +28992,8 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/dispatcher.cpp:31: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_service.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -28967,20 +29003,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_service.cpp:31: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -28993,7 +29019,20 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbisam.cpp: In member function 'ncbi::CSeqDBIsam::EErrorCode ncbi::CSeqDBIsam::x_StringSearch(const std::string&, std::vector >&, std::vector >&, std::vector&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbisam.cpp:972:9: warning: variable 'found_short' set but not used [-Wunused-but-set-variable] + 972 | int found_short(-1); + | ^~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/dispatcher.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -29001,65 +29040,40 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objistr.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp: At global scope: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp:88:13: warning: 'void ncbi::s_SeqDB_FileNotFound(const std::string&)' defined but not used [-Wunused-function] - 88 | static void s_SeqDB_FileNotFound(const string & fname) - | ^~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_align_util.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_align_util.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader.cpp:31: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:51: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/segmask/segmask.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/segmask/segmask.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -29067,7 +29081,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -29083,8 +29098,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/wgsmaster.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/wgsmaster.cpp:32: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/request_result.cpp:33: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -29094,9 +29110,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -29110,17 +29124,18 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/strsearch.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -29151,9 +29166,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/segmask/segmask.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/segmask/segmask.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -29161,27 +29174,17 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbisam.cpp: In member function 'ncbi::CSeqDBIsam::EErrorCode ncbi::CSeqDBIsam::x_StringSearch(const std::string&, std::vector >&, std::vector >&, std::vector&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbisam.cpp:972:9: warning: variable 'found_short' set but not used [-Wunused-but-set-variable] - 972 | int found_short(-1); - | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -29194,10 +29197,8 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/writer.cpp:31: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/wgsmaster.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/wgsmaster.cpp:32: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ @@ -29207,21 +29208,22 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info_object.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/seq_entry_info.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/wgsmaster.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:62: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -29229,8 +29231,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -29246,46 +29247,53 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/strsearch.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objistr.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_service.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_parser.cpp:69: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_service.cpp:31: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_parser.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -29295,12 +29303,20 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -29331,28 +29347,20 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp: In function 'void ncbi::SeqDB_ReadMemoryTaxIdList(const char*, const char*, CSeqDBGiList::STaxIdsOids&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp:1094:52: warning: comparison of integer expressions of different signedness: 'Int4' {aka 'int'} and 'unsigned int' [-Wsign-compare] - 1094 | if (((bendp - bbeginp) < 2) || (bbeginp[0] != 0xFFFFFFFF) - | ~~~~~~~~~~~^~~~~~~~~~~~~ -Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/wgsmaster.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -29380,10 +29388,19 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_align_util.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_align_util.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -29399,47 +29416,90 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/request_result.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbfile.cpp -o seqdbfile.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbimpl.cpp -o seqdbimpl.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp -o seqdbvol.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvolset.cpp -o seqdbvolset.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdboidlist.cpp -o seqdboidlist.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbisam.cpp -o seqdbisam.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/shIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp: At global scope: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp:88:13: warning: 'void ncbi::s_SeqDB_FileNotFound(const std::string&)' defined but not used [-Wunused-function] + 88 | static void s_SeqDB_FileNotFound(const string & fname) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -29456,15 +29516,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp: At global scope: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:288:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 288 | std::auto_ptr< CSymDustMasker::TMaskList > @@ -29479,6 +29530,29 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp: In member function 'ncbi::CRef ncbi::CSymDustMasker::GetMaskedInts(ncbi::objects::CSeq_id&, const sequence_type&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:313:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 313 | std::auto_ptr< TMaskList > res = (*this)( seq ); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_snp.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -29491,38 +29565,28 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp: In member function 'ncbi::CRef ncbi::CSymDustMasker::GetMaskedInts(ncbi::objects::CSeq_id&, const sequence_type&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:313:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 313 | std::auto_ptr< TMaskList > res = (*this)( seq ); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp: In function 'void ncbi::SeqDB_ReadMemoryTaxIdList(const char*, const char*, CSeqDBGiList::STaxIdsOids&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp:1094:52: warning: comparison of integer expressions of different signedness: 'Int4' {aka 'int'} and 'unsigned int' [-Wsign-compare] + 1094 | if (((bendp - bbeginp) < 2) || (bbeginp[0] != 0xFFFFFFFF) + | ~~~~~~~~~~~^~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id1_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp:31: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 103 | auto_ptr m_Indices; | ^~~~~~~~ @@ -29535,66 +29599,34 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processors.hpp:32, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/request_result.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp:47: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:62: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -29602,8 +29634,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -29619,64 +29651,65 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/writer.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_snp.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_parser.cpp:69: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_parser.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -29692,43 +29725,41 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/writer.cpp:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:67: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_impl.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id1_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp:31: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -29742,63 +29773,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp:51: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processors.hpp:32, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/request_result.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbfile.cpp -o seqdbfile.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbimpl.cpp -o seqdbimpl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp -o seqdbvol.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvolset.cpp -o seqdbvolset.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdboidlist.cpp -o seqdboidlist.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbisam.cpp -o seqdbisam.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/shIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:55: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -29823,80 +29815,65 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp: In member function 'int ncbi::CSeqDBVol::GetAmbigPartialSeq(int, char**, int, ncbi::ESeqDBAllocType, ncbi::CSeqDB::TSequenceRanges*, ncbi::CSeqDB::TSequenceRanges*) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp:1540:50: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] + 1540 | if ((*partial_ranges)[num_ranges - 1].second > base_length) { +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp: In member function 'int ncbi::CSeqDBVol::x_GetSequence(int, const char**) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp:1778:24: warning: comparing the result of pointer addition '((* buffer) + -1)' and NULL [-Waddress] + 1778 | if (! (*buffer - 1)) return -1; + | ~~~~~~~~~^~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/segmask/segmask.cpp -o segmask.o +/bin/rm -f libxalgosegmask.so .libxalgosegmask.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxalgosegmask.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC segmask.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast -lxobjmgr -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgosegmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxalgosegmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgosegmask.so +/bin/ln -f .xalgosegmask.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgosegmask.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp: In member function 'void ncbi::CSeqDBVol::GetRawSeqAndAmbig(int, const char**, int*, int*) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp:2969:11: warning: variable 'map_end' set but not used [-Wunused-but-set-variable] + 2969 | TIndx map_end = 0; + | ^~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -29927,6 +29904,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:55: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -29939,11 +29917,20 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp: In function 'bool ncbi::objects::sequence::BadSeqLocSortOrder(const ncbi::objects::CBioseq_Handle&, const ncbi::objects::CSeq_loc&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_loc_util.cpp:612:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] 612 | } catch (CException) { | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:55: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:55: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -29956,22 +29943,64 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp: In function 'void ncbi::objects::GetProteinWeights(const CBioseq_Handle&, TWeights&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:363:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] + 363 | } catch (CObjmgrUtilException) { + | ^~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id1_base.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/writer.cpp:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:67: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp: In instantiation of 'bool ncbi::objects::{anonymous}::s_IsTagStart(const _T&, const _T&) [with _T = const char*]': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:1824:61: required from here /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:1752:57: warning: comparison of integer expressions of different signedness: 'int' and 'const size_t' {aka 'const long unsigned int'} [-Wsign-compare] 1752 | for (int possible_str_idx = 0; possible_str_idx < num_possible_tag_starts; ++possible_str_idx) { | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp: In function 'void ncbi::objects::GetProteinWeights(const CBioseq_Handle&, TWeights&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:363:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] - 363 | } catch (CObjmgrUtilException) { - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp: In member function 'int ncbi::CSeqDBVol::GetAmbigPartialSeq(int, char**, int, ncbi::ESeqDBAllocType, ncbi::CSeqDB::TSequenceRanges*, ncbi::CSeqDB::TSequenceRanges*) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp:1540:50: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] - 1540 | if ((*partial_ranges)[num_ranges - 1].second > base_length) { -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp: In member function 'int ncbi::CSeqDBVol::x_GetSequence(int, const char**) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp:1778:24: warning: comparing the result of pointer addition '((* buffer) + -1)' and NULL [-Waddress] - 1778 | if (! (*buffer - 1)) return -1; - | ~~~~~~~~~^~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_maker.cpp:59: @@ -29993,16 +30022,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp: In member function 'void ncbi::CSeqDBVol::GetRawSeqAndAmbig(int, const char**, int*, int*) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbvol.cpp:2969:11: warning: variable 'map_end' set but not used [-Wunused-but-set-variable] - 2969 | TIndx map_end = 0; - | ^~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:86: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, @@ -30016,35 +30053,22 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/segmask/segmask.cpp -o segmask.o -/bin/rm -f libxalgosegmask.so .libxalgosegmask.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxalgosegmask.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC segmask.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast -lxobjmgr -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgosegmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxalgosegmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgosegmask.so -/bin/ln -f .xalgosegmask.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgosegmask.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CByteSourceReader; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CByteSourceReader; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'static void ncbi::objects::CWriter::WriteBytes(ncbi::CNcbiOstream&, ncbi::CRef)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/writer.cpp:56:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In static member function 'static void ncbi::objects::CWriter::WriteBytes(ncbi::CNcbiOstream&, ncbi::CRef)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp: In static member function 'static ncbi::CObjectIStream* ncbi::objects::CProcessor_ID2::x_OpenDataStream(const ncbi::objects::CID2_Reply_Data&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:1791:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1791 | auto_ptr reader(new COSSReader(data.GetData())); @@ -30084,6 +30108,30 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp -o symdust.o +/bin/rm -f libxalgodustmask.so .libxalgodustmask.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxalgodustmask.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC symdust.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjmgr -lseq -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgodustmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxalgodustmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgodustmask.so +/bin/ln -f .xalgodustmask.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgodustmask.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/info_cache.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/info_cache.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/info_cache.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:89: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, @@ -30097,18 +30145,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/info_cache.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/info_cache.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/info_cache.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -30130,6 +30172,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp: In function 'ncbi::objects::CSequenceAmbigTrimmer::TTrimRuleVec* ncbi::objects::{anonymous}::s_DefaultRuleCreator()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp:142:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 142 | auto_ptr pTrimRuleVec( new CSequenceAmbigTrimmer::TTrimRuleVec ); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: At global scope: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:1682:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1682 | auto_ptr &feat_ci, @@ -30144,27 +30193,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:1114:13: warning: 'bool ncbi::objects::s_IsValidAccession(const std::string&)' defined but not used [-Wunused-function] - 1114 | static bool s_IsValidAccession(const string& acc) - | ^~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp -o symdust.o -/bin/rm -f libxalgodustmask.so .libxalgodustmask.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxalgodustmask.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC symdust.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjmgr -lseq -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgodustmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxalgodustmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgodustmask.so -/bin/ln -f .xalgodustmask.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgodustmask.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In member function 'ncbi::CRef ncbi::objects::SRelLoc::Resolve(const ncbi::objects::CSeq_loc&, ncbi::objects::CScope*, TFlags) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:4617:22: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] + 4617 | } catch (CObjmgrUtilException) { + | ^~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, @@ -30178,10 +30210,29 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In member function 'ncbi::CRef ncbi::objects::SRelLoc::Resolve(const ncbi::objects::CSeq_loc&, ncbi::objects::CScope*, TFlags) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:4617:22: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] - 4617 | } catch (CObjmgrUtilException) { - | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In instantiation of 'void ncbi::objects::x_Translate(const Container&, std::string&, int, const CGenetic_code*, bool, bool, bool, bool, bool*) [with Container = std::__cxx11::basic_string; std::string = std::__cxx11::basic_string]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3957:16: required from here +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3501:43: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 3501 | const size_t usable_size = seq.size() > frame ? seq.size() - frame : 0; + | ~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In instantiation of 'void ncbi::objects::x_Translate(const Container&, std::string&, int, const CGenetic_codeIn member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CByteSourceReader; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CByteSourceReader; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'static void ncbi::objects::CWriter::WriteBytes(ncbi::CNcbiOstream&, ncbi::CRef)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/writer.cpp:56:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In static member function 'static void ncbi::objects::CWriter::WriteBytes(ncbi::CNcbiOstream&, ncbi::CRef)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +*, bool, bool, bool, bool, bool*) [with Container = CSeqVector; std::string = std::__cxx11::basic_string]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3985:16: required from here +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3501:43: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/objutil.cpp:1114:13: warning: 'bool ncbi::objects::s_IsValidAccession(const std::string&)' defined but not used [-Wunused-function] + 1114 | static bool s_IsValidAccession(const string& acc) + | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp: In function 'int ncbi::objects::SkipMixedContent(const char*)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:3599:23: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] 3599 | for (int i = 0; i < sizeof (mixedTags); i++) { @@ -30190,13 +30241,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp:3676:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] 3676 | for (int i = 0; i < str.length(); i++) { | ~~^~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp: In function 'ncbi::objects::CSequenceAmbigTrimmer::TTrimRuleVec* ncbi::objects::{anonymous}::s_DefaultRuleCreator()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seq_trimmer.cpp:142:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 142 | auto_ptr pTrimRuleVec( new CSequenceAmbigTrimmer::TTrimRuleVec ); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, @@ -30210,14 +30254,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In instantiation of 'void ncbi::objects::x_Translate(const Container&, std::string&, int, const CGenetic_code*, bool, bool, bool, bool, bool*) [with Container = std::__cxx11::basic_string; std::string = std::__cxx11::basic_string]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3957:16: required from here -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3501:43: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 3501 | const size_t usable_size = seq.size() > frame ? seq.size() - frame : 0; - | ~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In instantiation of 'void ncbi::objects::x_Translate(const Container&, std::string&, int, const CGenetic_code*, bool, bool, bool, bool, bool*) [with Container = CSeqVector; std::string = std::__cxx11::basic_string]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3985:16: required from here -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:3501:43: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In member function 'void ncbi::objects::sequence::CDeflineGenerator::x_SetTitleFromProteinIdx(const ncbi::objects::CBioseq_Handle&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:2146:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] 2146 | if (offset > 0 && offset < m_MainTitle.length()) { @@ -30294,7 +30330,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause_base.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30318,10 +30354,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objistr.hpp:37: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CGb_qual; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CGb_qual; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::feature::{anonymous}::SMatchingQuals::~SMatchingQuals()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:1332:12: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In destructor 'ncbi::objects::feature::{anonymous}::SMatchingQuals::~SMatchingQuals()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause_base.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -30343,7 +30393,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30369,8 +30419,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause_base.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_desc.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30378,7 +30427,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef_source_desc.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_desc.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -30394,41 +30444,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objistr.hpp:37: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CGb_qual; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CGb_qual; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::feature::{anonymous}::SMatchingQuals::~SMatchingQuals()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:1332:12: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In destructor 'ncbi::objects::feature::{anonymous}::SMatchingQuals::~SMatchingQuals()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CTSE_Lock::~CTSE_Lock()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_lock.hpp:61:9, - inlined from 'void ncbi::objects::CReaderRequestResult::x_AddTSE_LoadLock(const ncbi::objects::CTSE_LoadLock&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/request_result.cpp:856:25: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CReaderRequestResult::x_AddTSE_LoadLock(const ncbi::objects::CTSE_LoadLock&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp: In static member function 'static std::string ncbi::objects::CAutoDefAvailableModifier::GetSubSourceLabel(ncbi::objects::CSubSource_Base::ESubtype)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp:348:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] - 348 | } catch (CException) { - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp: In static member function 'static std::string ncbi::objects::CAutoDefAvailableModifier::GetOrgModLabel(ncbi::objects::COrgMod_Base::ESubtype)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp:390:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] - 390 | } catch (CException) { - | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_mod_combo.cpp:37: @@ -30458,9 +30473,23 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CTSE_Lock::~CTSE_Lock()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_lock.hpp:61:9, + inlined from 'void ncbi::objects::CReaderRequestResult::x_AddTSE_LoadLock(const ncbi::objects::CTSE_LoadLock&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/request_result.cpp:856:25: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CReaderRequestResult::x_AddTSE_LoadLock(const ncbi::objects::CTSE_LoadLock&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_desc.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30468,8 +30497,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef_source_desc.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_desc.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -30485,6 +30513,22 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef.cpp -o autodef.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause_base.cpp -o autodef_feature_clause_base.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_desc.cpp -o autodef_source_desc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp -o autodef_available_modifier.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_mod_combo.cpp -o autodef_mod_combo.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_group.cpp -o autodef_source_group.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -30515,16 +30559,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause_base.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -30537,38 +30571,18 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp: In static member function 'static std::string ncbi::objects::CAutoDefAvailableModifier::GetSubSourceLabel(ncbi::objects::CSubSource_Base::ESubtype)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp:348:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] + 348 | } catch (CException) { + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp: In static member function 'static std::string ncbi::objects::CAutoDefAvailableModifier::GetOrgModLabel(ncbi::objects::COrgMod_Base::ESubtype)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp:390:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] + 390 | } catch (CException) { + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_mod_combo.cpp: In member function 'bool ncbi::objects::CAutoDefModifierCombo::AddQual(bool, int, bool)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_mod_combo.cpp:1033:10: warning: unused variable 'added' [-Wunused-variable] 1033 | bool added = false, rval = false; | ^~~~~ -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef.cpp -o autodef.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause_base.cpp -o autodef_feature_clause_base.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_desc.cpp -o autodef_source_desc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_available_modifier.cpp -o autodef_available_modifier.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_mod_combo.cpp -o autodef_mod_combo.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_source_group.cpp -o autodef_source_group.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFIn member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CID2_Reply; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CID2_Reply; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::objects::SId2ProcessorStage::SId2ProcessorStage(const ncbi::objects::SId2ProcessorStage&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp:1617:8, - inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = ncbi::objects::SId2ProcessorStage; _Args = {const ncbi::objects::SId2ProcessorStage&}]' at /usr/include/c++/12/bits/stl_construct.h:119:7, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = const ncbi::objects::SId2ProcessorStage*; _ForwardIterator = ncbi::objects::SId2ProcessorStage*]' at /usr/include/c++/12/bits/stl_uninitialized.h:120:21: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = const ncbi::objects::SId2ProcessorStage*; _ForwardIterator = ncbi::objects::SId2ProcessorStage*]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, @@ -30584,6 +30598,18 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:142:41, @@ -30624,24 +30650,46 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CID2_Reply; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CID2_Reply; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::objects::SId2ProcessorStage::SId2ProcessorStage(const ncbi::objects::SId2ProcessorStage&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/reader_id2_base.cpp:1617:8, + inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = ncbi::objects::SId2ProcessorStage; _Args = {const ncbi::objects::SId2ProcessorStage&}]' at /usr/include/c++/12/bits/stl_construct.h:119:7, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = const ncbi::objects::SId2ProcessorStage*; _ForwardIterator = ncbi::objects::SId2ProcessorStage*]' at /usr/include/c++/12/bits/stl_uninitialized.h:120:21: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = const ncbi::objects::SId2ProcessorStage*; _ForwardIterator = ncbi::objects::SId2ProcessorStage*]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -30675,45 +30723,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/place_id.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/chunk_info.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:48: -In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', - inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, - inlined from 'ncbi::objects::CPlaceId::~CPlaceId()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/place_id.hpp:44:7, - inlined from 'std::pair >::~pair()' at /usr/include/c++/12/bits/stl_pair.h:185:12, - inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = std::pair >; _Tp = std::_Rb_tree_node > >]' at /usr/include/c++/12/bits/new_allocator.h:181:13, - inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = std::pair >; _Tp = std::_Rb_tree_node > >]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, - inlined from 'void std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_destroy_node(_Link_type) [with _Key = ncbi::objects::CPlaceId; _Val = std::pair >; _KeyOfValue = std::_Select1st > >; _Compare = std::less; _Alloc = std::allocator > >]' at /usr/include/c++/12/bits/stl_tree.h:623:24, - inlined from 'void std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_drop_node(_Link_type) [with _Key = ncbi::objects::CPlaceId; _Val = std::pair >; _KeyOfValue = std::_Select1st > >; _Compare = std::less; _Alloc = std::allocator > >]' at /usr/include/c++/12/bits/stl_tree.h:631:17, - inlined from 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_Auto_node::~_Auto_node() [with _Key = ncbi::objects::CPlaceId; _Val = std::pair >; _KeyOfValue = std::_Select1st > >; _Compare = std::less; _Alloc = std::allocator > >]' at /usr/include/c++/12/bits/stl_tree.h:1642:23, - inlined from 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = ncbi::objects::CPlaceId; _Val = std::pair >; _KeyOfValue = std::_Select1st > >; _Compare = std::less; _Alloc = std::allocator > >]' at /usr/include/c++/12/bits/stl_tree.h:2466:7, - inlined from 'std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = ncbi::objects::CPlaceId; _Tp = std::set; _Compare = std::less; _Alloc = std::allocator > >]' at /usr/include/c++/12/bits/stl_map.h:511:37, - inlined from 'void ncbi::objects::CBlobSplitterImpl::MakeID2Chunk(TChunkId, const ncbi::objects::SChunkInfo&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_maker.cpp:967:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 91 | if ( m_LockCounter.Add(-1) <= 0 ) { - | ^~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CBlobSplitterImpl::MakeID2Chunk(TChunkId, const ncbi::objects::SChunkInfo&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ EFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbobj.cpp -o seqdbobj.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdb_lmdb.cpp -o seqdb_lmdb.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdblmdbset.cpp -o seqdblmdbset.o @@ -30726,45 +30735,45 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xloader_blastdb UNIX_PROJ="" sources= configurables=configurables.null -cd objtools/blast/seqdb_writer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=writedb UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/blast/services/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_services_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/blast/seqdb_writer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=writedb UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/blast/services/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_services_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb TMPL=ncbi_xloader_blastdb -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer TMPL=writedb -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer TMPL=writedb -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb TMPL=ncbi_xloader_blastdb -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services/unit_test TMPL=blast_services_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb.cpp -o writedb.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_impl.cpp -o writedb_impl.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_volume.cpp -o writedb_volume.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_files.cpp -o writedb_files.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp -o writedb_isam.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.cpp -o writedb_gmake[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.cpp -o writedb_gIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services/unit_test/blast_services_test.cpp:66: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -30875,10 +30884,36 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/place_id.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/chunk_info.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:48: +In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', + inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, + inlined from 'ncbi::objects::CPlaceId::~CPlaceId()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/place_id.hpp:44:7, + inlined from 'std::pair >::~pair()' at /usr/include/c++/12/bits/stl_pair.h:185:12, + inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = std::pair >; _Tp = std::_Rb_tree_node > >]' at /usr/include/c++/12/bits/new_allocator.h:181:13, + inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = std::pair >; _Tp = std::_Rb_tree_node > >]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, + inlined from 'void std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_destroy_node(_Link_type) [with _Key = ncbi::objects::CPlaceId; _Val = std::pair >; _KeyOfValue = std::_Select1st > >; _Compare = std::less; _Alloc = std::allocator > >]' at /usr/include/c++/12/bits/stl_tree.h:623:24, + inlined from 'void std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_drop_node(_Link_type) [with _Key = ncbi::objects::CPlaceId; _Val = std::pair >; _KeyOfValue = std::_Select1st > >; _Compare = std::less; _Alloc = std::allocator > >]' at /usr/include/c++/12/bits/stl_tree.h:631:17, + inlined from 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_Auto_node::~_Auto_node() [with _Key = ncbi::objects::CPlaceId; _Val = std::pair >; _KeyOfValue = std::_Select1st > >; _Compare = std::less; _Alloc = std::allocator > >]' at /usr/include/c++/12/bits/stl_tree.h:1642:23, + inlined from 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::tuple<>}; _Key = ncbi::objects::CPlaceId; _Val = std::pair >; _KeyOfValue = std::_Select1st > >; _Compare = std::less; _Alloc = std::allocator > >]' at /usr/include/c++/12/bits/stl_tree.h:2466:7, + inlined from 'std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = ncbi::objects::CPlaceId; _Tp = std::set; _Compare = std::less; _Alloc = std::allocator > >]' at /usr/include/c++/12/bits/stl_map.h:511:37, + inlined from 'void ncbi::objects::CBlobSplitterImpl::MakeID2Chunk(TChunkId, const ncbi::objects::SChunkInfo&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_maker.cpp:967:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 91 | if ( m_LockCounter.Add(-1) <= 0 ) { + | ^~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/split/blob_splitter_impl.hpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CBlobSplitterImpl::MakeID2Chunk(TChunkId, const ncbi::objects::SChunkInfo&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/cached_sequence.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/cached_sequence.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -30890,17 +30925,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ - /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/split_exceptions.cpp -o split_exceptions.o -/bin/rm -f libid2_split.so .libid2_split.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libid2_split.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC blob_splitter.o blob_splitter_params.o split_blob.o blob_splitter_impl.o blob_splitter_parser.o blob_splitter_maker.o id_range.o object_splitinfo.o asn_sizer.o annot_piece.o chunk_info.o size.o split_exceptions.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjmgr -lseqsplit -lseqset -lseq -lgeneral -lxser -lxcompress -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libid2_split.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libid2_split.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libid2_split.so -/bin/ln -f .id2_split.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.id2_split.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/cached_sequence.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/cached_sequence.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -30924,7 +30952,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_files.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30932,12 +30961,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Align_def_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Align_def.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq__.hpp:1, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_general.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_error.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -30945,7 +30973,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_convert.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_column.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_column.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30955,8 +30985,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/sequtil/sequtil_convert.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_convert.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_error.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_column.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -30978,6 +31009,14 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ @@ -30989,8 +31028,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_column.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_column.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_files.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30998,11 +31036,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_error.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_column.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Align_def_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Align_def.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq__.hpp:1, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_general.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:41: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -31024,29 +31063,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_volume.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_volume.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_error.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_volume.hpp:41: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_impl.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -31058,19 +31076,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_error.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_gimask.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -31127,8 +31133,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_files.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_volume.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_impl.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_volume.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -31140,7 +31145,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_error.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_volume.hpp:41: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -31156,35 +31161,14 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -oducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/incr_time.cpp -o incr_time.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/info_cache.cpp -o info_cache.o -/bin/rm -f libncbi_xreader.a .libncbi_xreader.a.stamp -ar cr libncbi_xreader.a dispatcher.o reader.o writer.o processors.o wgsmaster.o reader_snp.o seqref.o blob_id.o request_result.o reader_id1_base.o reader_id2_base.o reader_service.o incr_time.o info_cache.o -/bin/rm -f libncbi_xreader.so .libncbi_xreader.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC dispatcher.o reader.o writer.o processors.o wgsmaster.o reader_snp.o seqref.o blob_id.o request_result.o reader_id1_base.o reader_id2_base.o reader_service.o incr_time.o info_cache.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader.a -/bin/ln -f .ncbi_xreader-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader-static.dep -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader.so -/bin/ln -f .ncbi_xreader.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -cd objtools/data_loaders/genbank/cache/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_cache UNIX_PROJ="" sources= configurables=configurables.null -cd objtools/data_loaders/genbank/id1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_id1 UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/data_loaders/genbank/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_id2 UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. + /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/split_exceptions.cpp -o split_exceptions.o +/bin/rm -f libid2_split.so .libid2_split.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libid2_split.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC blob_splitter.o blob_splitter_params.o split_blob.o blob_splitter_impl.o blob_splitter_parser.o blob_splitter_maker.o id_range.o object_splitinfo.o asn_sizer.o annot_piece.o chunk_info.o size.o split_exceptions.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjmgr -lseqsplit -lseqset -lseq -lgeneral -lxser -lxcompress -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libid2_split.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libid2_split.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libid2_split.so +/bin/ln -f .id2_split.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.id2_split.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -31204,31 +31188,37 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp: In member function 'void ncbi::CWriteDB_IsamIndex::x_AddPdb(int, const ncbi::objects::CSeq_id&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp:659:9: warning: unused variable 'len' [-Wunused-variable] - 659 | int len = short_id.size(); - | ^~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache TMPL=ncbi_xreader_cache -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/writedb_convert.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_convert.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/sequtil/sequtil_convert.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_convert.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -31240,6 +31230,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp: In member function 'void ncbi::CWriteDB_IsamIndex::x_AddPdb(int, const ncbi::objects::CSeq_id&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_isam.cpp:659:9: warning: unused variable 'len' [-Wunused-variable] + 659 | int len = short_id.size(); + | ^~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, @@ -31251,8 +31245,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2 TMPL=ncbi_xreader_id2 -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1 TMPL=ncbi_xreader_id1 -w -j12 --jobserver-auth=7,8 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -31265,9 +31257,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; @@ -31275,23 +31264,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/hookdatakey.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/hookdata.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/typeinfo.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/multisource_util.cpp:34: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'std::string ncbi::AccessionToKey(const std::string&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/multisource_util.cpp:106:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/hookdata.hpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'std::string ncbi::AccessionToKey(const std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp:45: @@ -31338,107 +31310,23 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/hookdatakey.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/hookdata.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/typeinfo.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/multisource_util.cpp:34: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CSeqDB; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CSeqDB; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'bool ncbi::s_ComputeNumSequencesAndDbLength(const std::string&, bool, Uint8*, int*)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb.cpp:294:5: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'std::string ncbi::AccessionToKey(const std::string&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/multisource_util.cpp:106:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'bool ncbi::s_ComputeNumSequencesAndDbLength(const std::string&, bool, Uint8*, int*)': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/hookdata.hpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'std::string ncbi::AccessionToKey(const std::string&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp: In member function 'void ncbi::CWriteDB_LMDB::x_CommitTransaction()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp:295:55: warning: 'unsigned int ncbi::GetCpuCount()' is deprecated [-Wdeprecated-declarations] - 295 | unsigned int num_threads = GetCpuCount(); - | ~~~~~~~~~~~^~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:479:14: note: declared here - 479 | unsigned int GetCpuCount(void) - | ^~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/cache/reader_cache.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:31: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id1_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id1/reader_id1.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ SET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_feature_clause.cpp -o autodef_feature_clause.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_options.cpp -o autodef_options.o /bin/rm -f libxobjutil.so .libxobjutil.so.stamp @@ -31447,20 +31335,23 @@ /bin/ln -f libxobjutil.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjutil.so /bin/ln -f .xobjutil.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjutil.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' cd objtools/seqmasks_io/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqmasks_io UNIX_PROJ="" sources= configurables=configurables.null -cd algo/blast/dbindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgoblastdbindex UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd algo/blast/dbindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgoblastdbindex UNIX_PROJ="" sources= configurables=configurables.null +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CSeqDB; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CSeqDB; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'bool ncbi::s_ComputeNumSequencesAndDbLength(const std::string&, bool, Uint8*, int*)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb.cpp:294:5: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'bool ncbi::s_ComputeNumSequencesAndDbLength(const std::string&, bool, Uint8*, int*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ cd objtools/alnmgr/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=alnmgr UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' make[4]: warning: -j12 forced in submake: resetting jobserver mode. @@ -31470,80 +31361,78 @@ cd objtools/edit/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=edit UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/blast/gene_info_reader/demo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gene_info_reader LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd objtools/blast/gene_info_reader/demo/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gene_info_reader LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +cd objtools/blast/seqdb_reader/demo/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_demo LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/blast/seqdb_reader/test/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_perf LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr TMPL=alnmgr -w -j12 --jobserver-auth=7,8 all make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CTSE_Lock::~CTSE_Lock()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_lock.hpp:61:9, - inlined from 'virtual ncbi::objects::CDataLoader::TTSE_LockSet ncbi::objects::CBlastDbDataLoader::GetRecords(const ncbi::objects::CSeq_id_Handle&, ncbi::objects::CDataLoader::EChoice)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp:244:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual ncbi::objects::CDataLoader::TTSE_LockSet ncbi::objects::CBlastDbDataLoader::GetRecords(const ncbi::objects::CSeq_id_Handle&, ncbi::objects::CDataLoader::EChoice)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io TMPL=seqmasks_io -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo TMPL=gene_info_reader -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex TMPL=xalgoblastdbindex -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format TMPL=blastdb_format -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex TMPL=xalgoblastdbindex -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format TMPL=blastdb_format -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit TMPL=edit -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr TMPL=alnmgr -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/demo TMPL=seqdb_demo -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo TMPL=gene_info_reader -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test TMPL=seqdb_perf -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_builders.cpp -o aln_builders.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_converters.cpp -o aln_converters.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_generators.cpp -o aln_generators.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_seqid.cpp -o aln_seqid.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_serial.cpp -o aln_serial.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alndiag.cpp -o alndiag.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_cmdline_args.cpp -o mask_cmdline_args.o @@ -31552,22 +31441,8 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp -o mask_writer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_fasta.cpp -o mask_writer_fasta.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_int.cpp -o mask_writer_int.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=.In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=.make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gene_utils.cpp -o gene_utils.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp -o seq_entry_edit.o @@ -31575,7 +31450,124 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/autodef_with_tax.cpp -o autodef_with_tax.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp -o field_handler.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp -o apply_object.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=foIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=fomake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_builders.cpp -o aln_builders.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_converters.cpp -o aln_converters.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_generators.cpp -o aln_generators.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_seqid.cpp -o aln_seqid.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_serial.cpp -o aln_serial.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alndiag.cpp -o alndiag.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) @@ -31685,138 +31677,83 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/cache/writer_cache.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:31: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +oducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/incr_time.cpp -o incr_time.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/info_cache.cpp -o info_cache.o +/bin/rm -f libncbi_xreader.a .libncbi_xreader.a.stamp +ar cr libncbi_xreader.a dispatcher.o reader.o writer.o processors.o wgsmaster.o reader_snp.o seqref.o blob_id.o request_result.o reader_id1_base.o reader_id2_base.o reader_service.o incr_time.o info_cache.o +/bin/rm -f libncbi_xreader.so .libncbi_xreader.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC dispatcher.o reader.o writer.o processors.o wgsmaster.o reader_snp.o seqref.o blob_id.o request_result.o reader_id1_base.o reader_id2_base.o reader_service.o incr_time.o info_cache.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader.a +/bin/ln -f .ncbi_xreader-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader-static.dep +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader.so +/bin/ln -f .ncbi_xreader.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +cd objtools/data_loaders/genbank/cache/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_cache UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache TMPL=ncbi_xreader_cache -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp -o alnmap.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmapprint.cpp -o alnmapprint.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp -o alnmatch.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp -o alnmerger.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmix.cpp -o alnmix.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnpos_ci.cpp -o alnpos_ci.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.cIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp: In function 'ncbi::objects::SCacheInfo::TParams* ncbi::objects::GetCacheParams(const SCacheInfo::TParams*, SCacheInfo::EReaderOrWriter, SCacheInfo::EIdOrBlob)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1647:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1647 | auto_ptr section - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp: In static member function 'static ncbi::ICache* ncbi::objects::SCacheInfo::CreateCache(const TParams*, EReaderOrWriter, EIdOrBlob)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1676:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1676 | auto_ptr cache_params - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp: In member function 'virtual void ncbi::objects::CCacheReader::InitializeCache(ncbi::objects::CReaderCacheManager&, const ncbi::TPluginManagerParamTree*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1696:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1696 | auto_ptr id_params - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1698:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1698 | auto_ptr blob_params - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp: In member function 'virtual void ncbi::objects::CCacheWriter::InitializeCache(ncbi::objects::CReaderCacheManager&, const ncbi::TPluginManagerParamTree*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:66:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 66 | auto_ptr id_params - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:68:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 68 | auto_ptr blob_params +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_generators.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_generators.cpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp: In member function 'void ncbi::objects::CCacheWriter::WriteSeq_ids(const std::string&, const ncbi::objects::CLoadLockSeqIds&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:336:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 336 | auto_ptr writer - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp: At global scope: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:532:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 532 | auto_ptr m_Writer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:533:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 533 | auto_ptr m_Stream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -31854,6 +31791,21 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CTSE_Lock::~CTSE_Lock()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_lock.hpp:61:9, + inlined from 'virtual ncbi::objects::CDataLoader::TTSE_LockSet ncbi::objects::CBlastDbDataLoader::GetRecords(const ncbi::objects::CSeq_id_Handle&, ncbi::objects::CDataLoader::EChoice)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp:244:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual ncbi::objects::CDataLoader::TTSE_LockSet ncbi::objects::CBlastDbDataLoader::GetRecords(const ncbi::objects::CSeq_id_Handle&, ncbi::objects::CDataLoader::EChoice)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp: In member function 'virtual void CReadFilesApp::Init()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp:121:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 121 | auto_ptr arg_desc(new CArgDescriptions); @@ -31861,51 +31813,22 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp -o alnmap.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmapprint.cpp -o alnmapprint.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp -o alnmatch.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp -o alnmerger.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmix.cpp -o alnmix.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnpos_ci.cpp -o alnpos_ci.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.cmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp -o bdbloader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/cached_sequence.cpp -o cached_sequence.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/local_blastdb_adapter.cpp -o local_blastdb_adapter.o -/bin/rm -f libncbi_xloader_blastdb.so .libncbi_xloader_blastdb.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xloader_blastdb.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC bdbloader.o cached_sequence.o local_blastdb_adapter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjmgr -lseqset -lseq -lxncbi -llmdb -lpthread -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_blastdb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xloader_blastdb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_blastdb.so -/bin/ln -f .ncbi_xloader_blastdb.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_blastdb.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -cd objtools/blast/seqdb_reader/demo/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_demo LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:38: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/demo TMPL=seqdb_demo -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp: In member function 'void ncbi::CWriteDB_LMDB::x_CommitTransaction()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp:295:55: warning: 'unsigned int ncbi::GetCpuCount()' is deprecated [-Wdeprecated-declarations] + 295 | unsigned int num_threads = GetCpuCount(); + | ~~~~~~~~~~~^~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:479:14: note: declared here + 479 | unsigned int GetCpuCount(void) + | ^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmix.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmerger.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -31916,7 +31839,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmerger.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -31932,28 +31855,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:38: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr m_Starts; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_formatter.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_fasta.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -31961,31 +31866,16 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_seqid.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_fasta.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -31995,21 +31885,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seqdesc_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seqdesc.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -32042,77 +31917,65 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmerger.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmerger.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seqdesc_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seqdesc.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr m_Starts; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_serial.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_serial.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/pairwise_aln.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_serial.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/cache/writer_cache.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqid_comp.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqids_extractor.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_tests.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_stats.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_builders.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_builders.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmix.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32120,7 +31983,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_builders.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -32130,29 +31996,8 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/string_constraint.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/string_constraint.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/string_constraint.cpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32160,16 +32005,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -32179,19 +32015,15 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/dblink_field.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/dblink_field.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32199,26 +32031,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/dblink_field.cpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -32242,10 +32055,8 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/string_constraint.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/string_constraint.cpp:33: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32253,10 +32064,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/string_constraint.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -32272,9 +32080,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_generators.cpp:47: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gene_utils.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32282,10 +32091,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_generators.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gene_utils.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -32301,18 +32107,28 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/cache/reader_cache.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32331,10 +32147,21 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_fasta.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32343,18 +32170,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_fasta.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=gene_info_reader /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp -o gene_info_reader_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie gene_info_reader_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lgene_info -lxobjutil -lseqdb -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -llmdb -lpthread -lm -lpthread -o gene_info_reader -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gene_info_reader /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f gene_info_reader /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gene_info_reader -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -32367,67 +32188,43 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' -cd objtools/blast/seqdb_reader/test/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_perf LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_bdb_reader.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_bdb_reader.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnpos_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnpos_ci.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/dblink_field.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/dblink_field.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/dblink_field.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; - | ^~In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/autodef_with_tax.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/autodef_with_tax.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-bl~~~~~~ -ast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/autodef_with_tax.hpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp: In member function 'void ncbi::objects::CAlnMixMerger::x_CreateDenseg()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:1210:44: warning: comparison of integer expressions of different signedness: 'const unsigned int' and 'int' [-Wsign-compare] + 1210 | if (start_its_i->second->first != -1) { + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32435,19 +32232,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:31: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -32463,30 +32251,17 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32494,14 +32269,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test TMPL=seqdb_perf -w -j12 --jobserver-auth=7,8 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -32514,28 +32285,66 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=gene_info_reader /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp -o gene_info_reader_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie gene_info_reader_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lgene_info -lxobjutil -lseqdb -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -llmdb -lpthread -lm -lpthread -o gene_info_reader +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gene_info_reader /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f gene_info_reader /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gene_info_reader +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' +cd objtools/data_loaders/genbank/id1/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_id1 UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr m_Starts; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1 TMPL=ncbi_xreader_id1 -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_writer.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_writer_seqloc.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_seqloc.cpp:33: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual void ncbi::CMaskWriterSeqLoc::Print(ncbi::objects::CBioseq_Handle&, const ncbi::CMaskWriter::TMaskList&, bool)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_seqloc.cpp:88:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::CMaskWriterSeqLoc::Print(ncbi::objects::CBioseq_Handle&, const ncbi::CMaskWriter::TMaskList&, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp: In member function 'ncbi::CRef ncbi::objects::CAlnMap::CreateAlignFromRange(const std::vector&, ncbi::TSignedSeqPos, ncbi::TSignedSeqPos, ESegmentTrimFlag)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:1472:35: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CAlnMap::TNumrow' {aka 'int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 1472 | for (TNumrow row = 0; row < selected_rows.size(); row++) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/gb_block_field.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader.cpp -o bdbloader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/cached_sequence.cpp -o cached_sequence.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/local_blastdb_adapter.cpp -o local_blastdb_adapter.o +/bin/rm -f libncbi_xloader_blastdb.so .libncbi_xloader_blastdb.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xloader_blastdb.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC bdbloader.o cached_sequence.o local_blastdb_adapter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjmgr -lseqset -lseq -lxncbi -llmdb -lpthread -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_blastdb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xloader_blastdb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_blastdb.so +/bin/ln -f .ncbi_xloader_blastdb.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_blastdb.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -32548,12 +32357,36 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +cd objtools/data_loaders/genbank/id2/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_id2 UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr m_Starts; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2 TMPL=ncbi_xreader_id2 -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function 'void CSeqDBPerfApp::x_UpdateMemoryUsage(int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:114:23: warning: 'bool ncbi::GetMemoryUsage(size_t*, size_t*, size_t*)' is deprecated [-Wdeprecated-declarations] + 114 | if (GetMemoryUsage(&mu.total, &mu.resident, &mu.shared)) { + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:511:13: note: declared here + 511 | extern bool GetMemoryUsage(size_t* total, size_t* resident, size_t* shared); + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_formatter.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_formatter.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_dataextract.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32566,7 +32399,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/invalid_data_exception.hpp:31, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_formatter.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_dataextract.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -32582,40 +32415,20 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_fasta.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function 'int CSeqDBPerfApp::x_ScanDatabase()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:153:31: warning: comparison of integer expressions of different signedness: 'ssize_t' {aka 'long int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 153 | for (ssize_t i = 0; i < oids2iterate.size(); i++) { + | ~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -32628,122 +32441,32 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function 'virtual void CSeqDBPerfApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:285:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 285 | auto_ptr arg_desc(new CArgDescriptions); + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_serial.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_serial.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqid_comp.hpp:42, @@ -32766,6 +32489,27 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/pairwise_aln.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_serial.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -32778,9 +32522,41 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp: In constructor 'ncbi::objects::edit::CSeqIdGuesser::CSeqIdGuesser(ncbi::objects::CSeq_entry_Handle)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:92:48: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] + 92 | size_t pos = NStr::Find(tag_str, "/", 0, string::npos, NStr::eLast); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here + 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, + | ^~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/gb_block_field.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32788,27 +32564,32 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:31: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp: In member function 'void ncbi::objects::CAlnMixMerger::x_CreateDenseg()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:1210:44: warning: comparison of integer expressions of different signedness: 'const unsigned int' and 'int' [-Wsign-compare] - 1210 | if (start_its_i->second->first != -1) { - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/autodef.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/autodef_with_tax.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/autodef_with_tax.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/autodef_with_tax.hpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -32821,43 +32602,56 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_writer.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_writer_seqloc.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_seqloc.cpp:33: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual void ncbi::CMaskWriterSeqLoc::Print(ncbi::objects::CBioseq_Handle&, const ncbi::CMaskWriter::TMaskList&, bool)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_seqloc.cpp:88:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::CMaskWriterSeqLoc::Print(ncbi::objects::CBioseq_Handle&, const ncbi::CMaskWriter::TMaskList&, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr m_Starts; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gene_utils.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp: In static member function 'static std::vector > ncbi::objects::edit::CSeqIdGuesser::GetIdStrings(ncbi::objects::CBioseq_Handle)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:171:44: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] + 171 | size_t pos = NStr::Find(tag_str, "/", 0, string::npos, NStr::eLast); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here + 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, + | ^~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_fasta.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gene_utils.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -32877,8 +32671,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_fasta_reader.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_bdb_reader.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ @@ -32888,7 +32681,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_fasta_reader.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_bdb_reader.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -32904,10 +32697,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/text_desc_field.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp:41: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_formatter.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -32915,7 +32710,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_seqid.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -32931,85 +32731,34 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp: In static member function 'static bool ncbi::objects::CAlnMixMatches::x_CompareChainScores(const ncbi::CRef&, const ncbi::CRef&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:76:55: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 76 | match1->m_ChainScore == match2->m_ChainScore && - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ - 77 | match1->m_Score > match2->m_Score || - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp: In member function 'void ncbi::objects::CAlnMixMatches::Add(const ncbi::objects::CDense_seg&, TAddFlags)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:192:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 192 | (aln_seq1->m_StrandScore > 0 && - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ - 193 | strand1 == eNa_strand_minus || - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:196:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 196 | aln_seq2->m_StrandScore > 0 && - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ - 197 | strand2 == eNa_strand_minus || - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:198:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 198 | aln_seq2->m_StrandScore < 0 && - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ - 199 | strand2 != eNa_strand_minus)) { - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp: In member function 'ncbi::CRef ncbi::objects::CAlnMap::CreateAlignFromRange(const std::vector&, ncbi::TSignedSeqPos, ncbi::TSignedSeqPos, ESegmentTrimFlag)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:1472:35: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CAlnMap::TNumrow' {aka 'int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 1472 | for (TNumrow row = 0; row < selected_rows.size(); row++) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/struc_comm_field.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/text_desc_field.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -33059,44 +32808,58 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp: In constructor 'ncbi::objects::edit::CSeqIdGuesser::CSeqIdGuesser(ncbi::objects::CSeq_entry_Handle)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:92:48: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] - 92 | size_t pos = NStr::Find(tag_str, "/", 0, string::npos, NStr::eLast); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here - 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, - | ^~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_dataextract.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnpos_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnpos_ci.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/invalid_data_exception.hpp:31, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_dataextract.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp: In static member function 'static std::vector > ncbi::objects::edit::CSeqIdGuesser::GetIdStrings(ncbi::objects::CBioseq_Handle)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp:171:44: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] - 171 | size_t pos = NStr::Find(tag_str, "/", 0, string::npos, NStr::eLast); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here - 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, - | ^~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -33106,22 +32869,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:52: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -33140,18 +32890,168 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr m_Starts; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:85:69: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 85 | CSeqFormatterConfig config = CSeqFormatterConfig()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here + 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:96:85: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 96 | void DumpAll(CSeqDB& blastdb, CSeqFormatterConfig config = CSeqFormatterConfig()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here + 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:85:68: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 85 | CSeqFormatterConfig config = CSeqFormatterConfig()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here + 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:96:84: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 96 | void DumpAll(CSeqDB& blastdb, CSeqFormatterConfig config = CSeqFormatterConfig()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here + 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp:49:74: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 49 | CSeqFormatterConfig config /* = CSeqFormatterConfig() */) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here + 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp:270:72: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 270 | void CSeqFormatter::DumpAll(CSeqDB& blastdb, CSeqFormatterConfig config) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here + 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { + | ^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp: In member function 'virtual void ncbi::objects::CCacheWriter::InitializeCache(ncbi::objects::CReaderCacheManager&, const ncbi::TPluginManagerParamTree*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:66:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 66 | auto_ptr id_params + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:68:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 68 | auto_ptr blob_params + | ^~~~~~~~ +/usr/include/c/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp: In static member function 'static bool ncbi::objects::CAlnMixMatches::x_CompareChainScores(const ncbi::CRef&, const ncbi::CRef&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:76:55: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 76 | match1->m_ChainScore == match2->m_ChainScore && + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ + 77 | match1->m_Score > match2->m_Score || + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp: In member function 'void ncbi::objects::CAlnMixMatches::Add(const ncbi::objects::CDense_seg&, TAddFlags)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:192:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 192 | (aln_seq1->m_StrandScore > 0 && + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ + 193 | strand1 == eNa_strand_minus || + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:196:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 196 | aln_seq2->m_StrandScore > 0 && + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ + 197 | strand2 == eNa_strand_minus || + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmatch.cpp:198:59: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 198 | aln_seq2->m_StrandScore < 0 && + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ + 199 | strand2 != eNa_strand_minus)) { + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:52: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp: In member function 'void ncbi::objects::CCacheWriter::WriteSeq_ids(const std::string&, const ncbi::objects::CLoadLockSeqIds&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:336:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 336 | auto_ptr writer + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/align_ci.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_formatter.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_formatter.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/invalid_data_exception.hpp:31, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_formatter.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp: At global scope: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:532:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 532 | auto_ptr m_Writer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp:533:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 533 | auto_ptr m_Stream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqid_comp.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqids_extractor.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_tests.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_stats.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_builders.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_builders.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -33159,7 +33059,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_builders.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -33175,10 +33075,30 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp: In function 'const ncbi::blastdbindex::SIndexHeader ncbi::blastdbindex::ReadIndexHeader(void*) [with bool LEGACY = true]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:306:19: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] - 306 | unsigned long tmp; - | ^~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp: In member function 'void ncbi::objects::edit::CPromote::x_PromoteCdregion(ncbi::objects::CSeq_feat&, TRnaMap*) const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/promote.cpp:224:51: warning: 'static void ncbi::objects::CCdregion_translate::TranslateCdregion(std::string&, const ncbi::objects::CSeq_feat&, ncbi::objects::CScope&, bool, bool, bool*, ETranslationLengthProblemOptions)' is deprecated [-Wdeprecated-declarations] 224 | CCdregion_translate::TranslateCdregion(data, @@ -33194,153 +33114,139 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:940:17: note: declared here 940 | static void TranslateCdregion(string& prot, | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_fasta_reader.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_fasta_reader.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +rmat-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/string_constraint.cpp -o string_constraint.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp -o seqid_guesser.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/dblink_field.cpp -o dblink_field.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp -o struc_comm_field.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp -o text_desc_field.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp -o gb_block_field.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-paIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/struc_comm_field.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp: In function 'ncbi::objects::SCacheInfo::TParams* ncbi::objects::GetCacheParams(const SCacheInfo::TParams*, SCacheInfo::EReaderOrWriter, SCacheInfo::EIdOrBlob)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1647:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1647 | auto_ptr section | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp: In static member function 'static ncbi::ICache* ncbi::objects::SCacheInfo::CreateCache(const TParams*, EReaderOrWriter, EIdOrBlob)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1676:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1676 | auto_ptr cache_params + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -rmat-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/string_constraint.cpp -o string_constraint.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seqid_guesser.cpp -o seqid_guesser.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/dblink_field.cpp -o dblink_field.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/struc_comm_field.cpp -o struc_comm_field.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp -o text_desc_field.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp -o gb_block_field.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-pa/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/field_handler.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp: In member function 'virtual void ncbi::objects::CCacheReader::InitializeCache(ncbi::objects::CReaderCacheManager&, const ncbi::TPluginManagerParamTree*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1696:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1696 | auto_ptr id_params + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp:1698:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1698 | auto_ptr blob_params | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp: In function 'const ncbi::blastdbindex::SIndexHeader ncbi::blastdbindex::ReadIndexHeader(void*) [with bool LEGACY = true]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp:306:19: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] + 306 | unsigned long tmp; + | ^~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_fasta_reader.cpp:34: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_entry; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_entry; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::CRef ncbi::CMaskFastaReader::GetNextSequence()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_fasta_reader.cpp:59:5: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual ncbi::CRef ncbi::CMaskFastaReader::GetNextSequence()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:85:69: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 85 | CSeqFormatterConfig config = CSeqFormatterConfig()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here - 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:96:85: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 96 | void DumpAll(CSeqDB& blastdb, CSeqFormatterConfig config = CSeqFormatterConfig()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here - 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:85:68: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 85 | CSeqFormatterConfig config = CSeqFormatterConfig()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here - 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:96:84: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 96 | void DumpAll(CSeqDB& blastdb, CSeqFormatterConfig config = CSeqFormatterConfig()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here - 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp:49:74: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 49 | CSeqFormatterConfig config /* = CSeqFormatterConfig() */) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here - 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp:270:72: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 270 | void CSeqFormatter::DumpAll(CSeqDB& blastdb, CSeqFormatterConfig config) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here - 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { - | ^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -33372,66 +33278,67 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual std::string ncbi::CMaskWriter::IdToString(ncbi::objects::CBioseq_Handle&, bool)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:60:62: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual std::string ncbi::CMaskWriter::IdToString(ncbi::objects::CBioseq_Handle&, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp:33: -In member function 'void ncbi::CObject::AddReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, - inlined from 'void ncbi::CRef::x_LockFromPtr() [with C = ncbi::objects::CSeq_annot; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1197:36, - inlined from 'ncbi::CRef::CRef(TObjectType*) [with C = ncbi::objects::CSeq_annot; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:648:26, - inlined from 'void ncbi::objects::edit::CApplyObject::ApplyChange()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp:188:72: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 494 | CheckReferenceOverflow(newCount - eCounterStep); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::edit::CApplyObject::ApplyChange()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr m_Starts; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:57: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.cpp: In member function 'void ncbi::objects::CAlnMixSegments::FillUnalignedRegions()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.cpp:311:27: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 311 | if (plus && prev_start_plus_len < start || - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/align_ci.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:32: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CSeqDBExpert; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CSeqDBExpert; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = ncbi::CRef; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/new_allocator.h:181:13, + inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = ncbi::CRef; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, + inlined from 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ncbi::CRef&}; _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/vector.tcc:501:28: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ncbi::CRef&}; _Tp = ncbi::CRef; _Alloc = std::allocator >]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -33444,21 +33351,85 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function 'void CSeqDBPerfApp::x_UpdateMemoryUsage(int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:114:23: warning: 'bool ncbi::GetMemoryUsage(size_t*, size_t*, size_t*)' is deprecated [-Wdeprecated-declarations] - 114 | if (GetMemoryUsage(&mu.total, &mu.resident, &mu.shared)) { - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:511:13: note: declared here - 511 | extern bool GetMemoryUsage(size_t* total, size_t* resident, size_t* shared); - | ^~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function 'int CSeqDBPerfApp::x_ScanDatabase()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:153:31: warning: comparison of integer expressions of different signedness: 'ssize_t' {aka 'long int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 153 | for (ssize_t i = 0; i < oids2iterate.size(); i++) { - | ~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function 'virtual void CSeqDBPerfApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:285:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 285 | auto_ptr arg_desc(new CArgDescriptions); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/demo/seqdb_demo.cpp:34: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual void ncbi::CSeqDBDemo_SeqidToBioseq::Run()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/demo/seqdb_demo.cpp:742:5: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::CSeqDBDemo_SeqidToBioseq::Run()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr m_Starts; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp: In member function 'std::string ncbi::blastdbindex::CSubjectMap_Factory_Base::extractSeqVector(TSeqData&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:658:47: warning: 'std::string ncbi::objects::sequence::GetTitle(const ncbi::objects::CBioseq_Handle&, TGetTitleFlags)' is deprecated [-Wdeprecated-declarations] + 658 | string idstr = objects::sequence::GetTitle( bsh ); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:289:8: note: declared here + 289 | string GetTitle(const CBioseq_Handle& hnd, TGetTitleFlags flags = 0); + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp: In member function 'void ncbi::blastdbindex::COffsetData_Factory::Save(ncbi::CNcbiOstream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:1409:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1409 | std::auto_ptr< CNcbiOfstream > stats; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp: In static member function 'static void ncbi::blastdbindex::CDbIndex_Factory::do_create_1_2(ncbi::blastdbindex::CSequenceIStream&, const std::string&, ncbi::blastdbindex::CDbIndex::TSeqNum, ncbi::blastdbindex::CDbIndex::TSeqNum, ncbi::blastdbindex::CDbIndex::TSeqNum&, ncbi::blastdbindex::CDbIndex::TSeqNum&, const ncbi::blastdbindex::CDbIndex::SOptions&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:1665:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1665 | std::auto_ptr< COffsetList::CDataPool > pool( + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.cpp: In member function 'void ncbi::objects::CAlnMixSegments::FillUnalignedRegions()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.cpp:311:27: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 311 | if (plus && prev_start_plus_len < start || + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp:33: +In member function 'void ncbi::CObject::AddReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, + inlined from 'void ncbi::CRef::x_LockFromPtr() [with C = ncbi::objects::CSeq_annot; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1197:36, + inlined from 'ncbi::CRef::CRef(TObjectType*) [with C = ncbi::objects::CSeq_annot; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:648:26, + inlined from 'void ncbi::objects::edit::CApplyObject::ApplyChange()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/apply_object.cpp:188:72: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 494 | CheckReferenceOverflow(newCount - eCounterStep); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:57: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::edit::CApplyObject::ApplyChange()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -33468,10 +33439,117 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp:32: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual std::string ncbi::CMaskWriter::IdToString(ncbi::objects::CBioseq_Handle&, bool)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer.cpp:60:62: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual std::string ncbi::CMaskWriter::IdToString(ncbi::objects::CBioseq_Handle&, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=seqdb_perf /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp -o seqdb_perf.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqdb_perf.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -llmdb -lpthread -lm -lpthread -o seqdb_perf +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_perf /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seqdb_perf /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_perf +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xloader_blastdb_rmt UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb TMPL=ncbi_xloader_blastdb_rmt -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_fasta_reader.cpp:34: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_entry; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_entry; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::CRef ncbi::CMaskFastaReader::GetNextSequence()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_fasta_reader.cpp:59:5: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual ncbi::CRef ncbi::CMaskFastaReader::GetNextSequence()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=seqdb_demo /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/demo/seqdb_demo.cpp -o seqdb_demo.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqdb_demo.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o seqdb_demo +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_demo /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seqdb_demo /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_demo +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'void ncbi::objects::edit::ConvertRawToDeltaByNs(ncbi::objects::CSeq_inst&, size_t, int, size_t, int, bool, int, int, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1854:71: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 1854 | if (n_len >= min_unknown && (max_unknown < 0 || n_len <= max_unknown)) { + | ~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1856:74: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 1856 | } else if (n_len >= min_known && (max_known < 0 || n_len <= max_known)) { + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1879:63: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 1879 | if (n_len >= min_unknown && (max_unknown < 0 || n_len <= max_unknown)) { + | ~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1881:66: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 1881 | } else if (n_len >= min_known && (max_known < 0 || n_len <= max_known)) { + | ~~~~~~^~~~~~~~~~~~ -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_tab.cpp -o mask_writer_tab.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_seqloc.cpp -o mask_writer_seqloc.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/seqmasks_io/mask_writer_blastdb_maskinfo.cpp -o mask_writer_blastdb_maskinfo.o @@ -33481,10 +33559,86 @@ /bin/ln -f libseqmasks_io.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqmasks_io.so /bin/ln -f .seqmasks_io.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqmasks_io.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'void ncbi::objects::edit::TrimSeqData(ncbi::objects::CBioseq_Handle, ncbi::CRef, const TCuts&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqSubMap' not handled in switch [-Wswitch] + 2481 | switch (seqmap_ci.GetType()) { + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqRef' not handled in switch [-Wswitch] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqEnd' not handled in switch [-Wswitch] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqChunk' not handled in switch [-Wswitch] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqLiteral' not handled in switch [-Wswitch] make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' cd algo/winmask/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgowinmask UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'bool ncbi::objects::edit::s_FindSegment(const ncbi::objects::CDense_seg&, ncbi::objects::CDense_seg_Base::TDim, ncbi::TSeqPos, ncbi::objects::CDense_seg_Base::TNumseg&, ncbi::TSeqPos&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2839:21: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'ncbi::TSignedSeqPos' {aka 'int'} [-Wsign-compare] + 2839 | if (pos >= start && pos < start + len) { + | ~~~~^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2839:39: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'ncbi::TSignedSeqPos' {aka 'int'} [-Wsign-compare] + 2839 | if (pos >= start && pos < start + len) { + | ~~~~^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'void ncbi::objects::edit::TrimSeqAlign(ncbi::objects::CBioseq_Handle, ncbi::CRef, const TCuts&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:3043:32: warning: comparison of integer expressions of different signedness: 'ncbi::TSignedSeqPos' {aka 'int'} and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] + 3043 | else if (seg_start < cut_from) { + | ~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:3046:32: warning: comparison of integer expressions of different signedness: 'ncbi::TSignedSeqPos' {aka 'int'} and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] + 3046 | else if (seg_start >= cut_from && + | ~~~~~~~~~~^~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnseq.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id1_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id1/reader_id1.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp:32: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' @@ -33492,28 +33646,7 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask TMPL=xalgowinmask -w -j12 --jobserver-auth=7,8 all -ix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/multisource_util.cpp -o multisource_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/criteria.cpp -o criteria.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp -o writedb_lmdb.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/seqidlist_writer.cpp -o seqidlist_writer.o -/bin/rm -f libwritedb.so .libwritedb.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libwritedb.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC writedb.o writedb_impl.o writedb_volume.o writedb_files.o writedb_isam.o writedb_gimask.o writedb_convert.o writedb_general.o writedb_column.o mask_info_registry.o taxid_set.o build_db.o multisource_util.o criteria.o writedb_lmdb.o seqidlist_writer.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjread -lxobjmgr -lblastdb -lseqset -lseq -lgeneral -lxser -lsequtil -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libwritedb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libwritedb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libwritedb.so -/bin/ln -f .writedb.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.writedb.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp: In member function 'std::string ncbi::blastdbindex::CSubjectMap_Factory_Base::extractSeqVector(TSeqData&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:658:47: warning: 'std::string ncbi::objects::sequence::GetTitle(const ncbi::objects::CBioseq_Handle&, TGetTitleFlags)' is deprecated [-Wdeprecated-declarations] - 658 | string idstr = objects::sequence::GetTitle( bsh ); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:289:8: note: declared here - 289 | string GetTitle(const CBioseq_Handle& hnd, TGetTitleFlags flags = 0); - | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xloader_blastdb_rmt UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp -o seq_masker.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean.cpp -o seq_masker_score_mean.o @@ -33521,126 +33654,27 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_min.cpp -o seq_masker_score_min.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_util.cpp -o seq_masker_util.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window.cpp -o seq_masker_window.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp: In member function 'void ncbi::blastdbindex::COffsetData_Factory::Save(ncbi::CNcbiOstream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:1409:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1409 | std::auto_ptr< CNcbiOfstream > stats; - | ^~~~~~~~ +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb TMPL=ncbi_xloader_blastdb_rmt -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp: In static member function 'static void ncbi::blastdbindex::CDbIndex_Factory::do_create_1_2(ncbi::blastdbindex::CSequenceIStream&, const std::string&, ncbi::blastdbindex::CDbIndex::TSeqNum, ncbi::blastdbindex::CDbIndex::TSeqNum, ncbi::blastdbindex::CDbIndex::TSeqNum&, ncbi::blastdbindex::CDbIndex::TSeqNum&, const ncbi::blastdbindex::CDbIndex::SOptions&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:1665:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1665 | std::auto_ptr< COffsetList::CDataPool > pool( - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnseq.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr m_Starts; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_mean.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -33734,8 +33768,8 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_mean_glob.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean_glob.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_min.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_min.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -33829,8 +33863,8 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_min.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_min.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_mean_glob.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean_glob.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -34110,10 +34144,8 @@ 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_mean.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -34204,22 +34236,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_services_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services/unit_test/blast_services_test.cpp -o blast_services_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blast_services_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblast_services -lxnetblastcli -lxnetblast -lseqdb -lblastdb -lscoremat -lxconnect -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o blast_services_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_services_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blast_services_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_services_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_lmdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnseq.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -34246,52 +34269,11 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'void ncbi::objects::edit::ConvertRawToDeltaByNs(ncbi::objects::CSeq_inst&, size_t, int, size_t, int, bool, int, int, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1854:71: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 1854 | if (n_len >= min_unknown && (max_unknown < 0 || n_len <= max_unknown)) { - | ~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1856:74: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 1856 | } else if (n_len >= min_known && (max_known < 0 || n_len <= max_known)) { - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1879:63: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 1879 | if (n_len >= min_unknown && (max_unknown < 0 || n_len <= max_unknown)) { - | ~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:1881:66: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 1881 | } else if (n_len >= min_known && (max_known < 0 || n_len <= max_known)) { - | ~~~~~~^~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader TMPL=seqdb_lmdb_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'void ncbi::objects::edit::TrimSeqData(ncbi::objects::CBioseq_Handle, ncbi::CRef, const TCuts&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqSubMap' not handled in switch [-Wswitch] - 2481 | switch (seqmap_ci.GetType()) { - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqRef' not handled in switch [-Wswitch] -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqEnd' not handled in switch [-Wswitch] -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqChunk' not handled in switch [-Wswitch] -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2481:16: warning: enumeration value 'eSeqLiteral' not handled in switch [-Wswitch] -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'bool ncbi::objects::edit::s_FindSegment(const ncbi::objects::CDense_seg&, ncbi::objects::CDense_seg_Base::TDim, ncbi::TSeqPos, ncbi::objects::CDense_seg_Base::TNumseg&, ncbi::TSeqPos&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2839:21: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'ncbi::TSignedSeqPos' {aka 'int'} [-Wsign-compare] - 2839 | if (pos >= start && pos < start + len) { - | ~~~~^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:2839:39: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'ncbi::TSignedSeqPos' {aka 'int'} [-Wsign-compare] - 2839 | if (pos >= start && pos < start + len) { - | ~~~~^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp: In function 'void ncbi::objects::edit::TrimSeqAlign(ncbi::objects::CBioseq_Handle, ncbi::CRef, const TCuts&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:3043:32: warning: comparison of integer expressions of different signedness: 'ncbi::TSignedSeqPos' {aka 'int'} and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] - 3043 | else if (seg_start < cut_from) { - | ~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:3046:32: warning: comparison of integer expressions of different signedness: 'ncbi::TSignedSeqPos' {aka 'int'} and 'ncbi::TSeqPos' {aka 'unsigned int'} [-Wsign-compare] - 3046 | else if (seg_start >= cut_from && - | ~~~~~~~~~~^~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_lmdb_unit_test.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_score_mean.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -34382,190 +34364,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp -o reader_id2.o -/bin/rm -f libncbi_xreader_id2.a .libncbi_xreader_id2.a.stamp -ar cr libncbi_xreader_id2.a reader_id2.o -/bin/rm -f libncbi_xreader_id2.so .libncbi_xreader_id2.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader_id2.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC reader_id2.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id2.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader_id2.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id2.a -/bin/ln -f .ncbi_xreader_id2-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id2-static.dep -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader_id2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id2.so -/bin/ln -f .ncbi_xreader_id2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id2.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader TMPL=seqdb_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnseq.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr m_Starts; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -pp -o alnsegments.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnseq.cpp -o alnseq.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec.cpp -o alnvec.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec_iterator.cpp -o alnvec_iterator.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp -o alnvecprint.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/pairwise_aln.cpp -o pairwise_aln.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp -o sparse_aln.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/demo/seqdb_demo.cpp:34: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual void ncbi::CSeqDBDemo_SeqidToBioseq::Run()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/demo/seqdb_demo.cpp:742:5: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::CSeqDBDemo_SeqidToBioseq::Run()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, @@ -34596,120 +34394,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -g/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_ambig.cpp -o seq_masker_window_ambig.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern.cpp -o seq_masker_window_pattern.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern_ambig.cpp -o seq_masker_window_pattern_ambig.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_factory.cpp -o seq_masker_ostat_factory.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat.cpp -o seq_masker_ostat.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_ascii.cpp -o seq_masker_ostat_ascii.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REEth/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/link_cds_mrna.cpp -o link_cds_mrna.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp -o cds_fix.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp -o loc_edit.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp -o mail_report.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp -o feattable_edit.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gaps_edit.cpp -o gaps_edit.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/source_edit.cpp -o source_edit.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_ascii.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_ascii.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -34736,48 +34427,98 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=seqdb_demo /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/demo/seqdb_demo.cpp -o seqdb_demo.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqdb_demo.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o seqdb_demo -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_demo /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seqdb_demo /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_demo -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=writedb_lmdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp: In member function 'void ncbi::objects::CAlnVecPrinter::PopsetStyle(int, EAlgorithm)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp:136:64: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 136 | if (left_seg < 0 || seg > right_seg && right_seg > 0) { + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp: In member function 'void ncbi::objects::CAlnVecPrinter::ClustalStyle(int, EAlgorithm)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp:300:64: warning: suggest parentheses around '&&' within '||' [-Wparentheses] + 300 | if (left_seg < 0 || seg > right_seg && right_seg > 0) { + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +pp -o alnsegments.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnseq.cpp -o alnseq.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec.cpp -o alnvec.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec_iterator.cpp -o alnvec_iterator.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp -o alnvecprint.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/pairwise_aln.cpp -o pairwise_aln.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp -o sparse_aln.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader_rmt.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader_rmt.hpp:38: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +g/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_ambig.cpp -o seq_masker_window_ambig.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern.cpp -o seq_masker_window_pattern.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern_ambig.cpp -o seq_masker_window_pattern_ambig.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_factory.cpp -o seq_masker_ostat_factory.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat.cpp -o seq_masker_ostat.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_ascii.cpp -o seq_masker_ostat_ascii.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REEix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/multisource_util.cpp -o multisource_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/criteria.cpp -o criteria.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb_lmdb.cpp -o writedb_lmdb.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/seqidlist_writer.cpp -o seqidlist_writer.o +/bin/rm -f libwritedb.so .libwritedb.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libwritedb.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC writedb.o writedb_impl.o writedb_volume.o writedb_files.o writedb_isam.o writedb_gimask.o writedb_convert.o writedb_general.o writedb_column.o mask_info_registry.o taxid_set.o build_db.o multisource_util.o criteria.o writedb_lmdb.o seqidlist_writer.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjread -lxobjmgr -lblastdb -lseqset -lseq -lgeneral -lxser -lsequtil -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libwritedb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libwritedb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libwritedb.so +/bin/ln -f .writedb.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.writedb.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_lmdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test TMPL=writedb_lmdb_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader TMPL=seqdb_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CSeqDBExpert; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CSeqDBExpert; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = ncbi::CRef; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/new_allocator.h:181:13, - inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = ncbi::CRef; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, - inlined from 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ncbi::CRef&}; _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/vector.tcc:501:28: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_lmdb_unit_test.cpp:36: +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_ascii.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_ascii.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corel/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const ncbi::CRef&}; _Tp = ncbi::CRef; _Alloc = std::allocator >]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -ib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' @@ -34861,71 +34602,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader_rmt.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader_rmt.hpp:38: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader TMPL=seqdb_lmdb_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -34955,87 +34634,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/cds_fix.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp -o reader_id1.o -/bin/rm -f libncbi_xreader_id1.a .libncbi_xreader_id1.a.stamp -ar cr libncbi_xreader_id1.a reader_id1.o -/bin/rm -f libncbi_xreader_id1.so .libncbi_xreader_id1.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader_id1.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC reader_id1.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id1.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader_id1.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id1.a -/bin/ln -f .ncbi_xreader_id1-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id1-static.dep -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader_id1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id1.so -/bin/ln -f .ncbi_xreader_id1.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id1.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp: In member function 'void ncbi::objects::CAlnVecPrinter::PopsetStyle(int, EAlgorithm)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp:136:64: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 136 | if (left_seg < 0 || seg > right_seg && right_seg > 0) { - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=writedb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp: In member function 'void ncbi::objects::CAlnVecPrinter::ClustalStyle(int, EAlgorithm)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvecprint.cpp:300:64: warning: suggest parentheses around '&&' within '||' [-Wparentheses] - 300 | if (left_seg < 0 || seg > right_seg && right_seg > 0) { - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test TMPL=writedb_unit_test -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_seqid.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/pairwise_aln.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_builders.hpp:39: -In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', - inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, - inlined from 'ncbi::CAlnSeqId::CAlnSeqId(const ncbi::objects::CSeq_id&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_seqid.hpp:125:5, - inlined from 'void ncbi::BuildAln(TAnchoredAlnVec&, CAnchoredAln&, const CAlnUserOptions&, TAlnSeqIdIRef)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_builders.cpp:702:61: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 91 | if ( m_LockCounter.Add(-1) <= 0 ) { - | ^~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_builders.hpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void ncbi::BuildAln(TAnchoredAlnVec&, CAnchoredAln&, const CAlnUserOptions&, TAlnSeqIdIRef)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/criteria_unit_test.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_lmdb_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -35146,7 +34747,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:46: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -35255,10 +34856,34 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_ascii.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_factory.cpp:36: +th/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/link_cds_mrna.cpp -o link_cds_mrna.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp -o cds_fix.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp -o loc_edit.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp -o mail_report.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp -o feattable_edit.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gaps_edit.cpp -o gaps_edit.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/source_edit.cpp -o source_edit.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_services_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/services/unit_test/blast_services_test.cpp -o blast_services_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blast_services_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblast_services -lxnetblastcli -lxnetblast -lseqdb -lblastdb -lscoremat -lxconnect -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o blast_services_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_services_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blast_services_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_services_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=writedb_lmdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test TMPL=writedb_lmdb_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_lmdb_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -35349,17 +34974,36 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=seqdb_perf /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp -o seqdb_perf.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqdb_perf.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -llmdb -lpthread -lm -lpthread -o seqdb_perf -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_perf /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seqdb_perf /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_perf -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_bin.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_bin.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_ascii.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_factory.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -35452,9 +35096,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/cds_fix.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -35462,9 +35105,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -35484,36 +35125,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_pattern.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_pattern_ambig.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern_ambig.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_util.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern_ambig.cpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/loc_edit.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_mean.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -35527,35 +35139,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -35572,14 +35155,17 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -35597,9 +35183,8 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_min.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/mail_report.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -35607,9 +35192,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -35627,10 +35210,8 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_ambig.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_ambig.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/loc_edit.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -35638,36 +35219,21 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/loc_edit.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::AddReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, + inlined from 'void ncbi::CConstRef::x_LockFromPtr() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1737:36, + inlined from 'ncbi::CConstRef::CConstRef(TObjectType*) [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1295:26, + inlined from 'ncbi::CAlnSeqId::CAlnSeqId(const ncbi::objects::CSeq_id&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_seqid.hpp:121:11, + inlined from 'void ncbi::CAlnSeqIdsIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_pattern.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_score_min.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -35675,11 +35241,21 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_util.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +Extract::operator()(const ncbi::objects::CSeq_align&, TIdVec&) const [with TAlnSeqId = ncbi::CAlnSeqId; TIdConverter = ncbi::CScopeAlnSeqIdConverter]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqids_extractor.hpp:162:29: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 494 | CheckReferenceOverflow(newCount - eCounterStep); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::CAlnSeqIdsExtract::operator()(const ncbi::objects::CSeq_align&, TIdVec&) const [with TAlnSeqId = ncbi::CAlnSeqId; TIdConverter = ncbi::CScopeAlnSeqIdConverter]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -35692,48 +35268,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp -o reader_cache.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp -o writer_cache.o -/bin/rm -f libncbi_xreader_cache.a .libncbi_xreader_cache.a.stamp -ar cr libncbi_xreader_cache.a reader_cache.o writer_cache.o -/bin/rm -f libncbi_xreader_cache.so .libncbi_xreader_cache.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader_cache.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC reader_cache.o writer_cache.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_cache.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader_cache.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_cache.a -/bin/ln -f .ncbi_xreader_cache-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_cache-static.dep -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_cache.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xreader_cache.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_cache.so -/bin/ln -f .ncbi_xreader_cache.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_cache.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xloader_genbank UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:36: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -35746,32 +35280,18 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank TMPL=ncbi_xloader_genbank -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/mail_report.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -35787,136 +35307,16 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:64: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:66: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_bin.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_bin.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -36007,30 +35407,49 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_ambig.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_ambig.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp: In member function 'ncbi::CSeqMasker::TMaskList* ncbi::CSeqMasker::DoMask(const ncbi::objects::CSeqVector&, ncbi::TSeqPos, ncbi::TSeqPos) const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:166:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 166 | auto_ptr mask(new TMaskList); @@ -36038,6 +35457,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:171:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 171 | auto_ptr window_ptr | ^~~~~~~~ @@ -36071,31 +35496,82 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_pattern.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_pattern_ambig.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern_ambig.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_util.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern_ambig.cpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp: In function 'bool ncbi::objects::edit::AdjustForCDSPartials(const ncbi::objects::CSeq_feat&, ncbi::objects::CSeq_entry_Handle)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:457:57: warning: 'bool ncbi::objects::edit::AdjustProteinMolInfoToMatchCDS(ncbi::objects::CMolInfo&, const ncbi::objects::CSeq_feat&)' is deprecated [-Wdeprecated-declarations] - 457 | any_change |= AdjustProteinMolInfoToMatchCDS((*it)->SetMolinfo(), cds); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:366:6: note: declared here - 366 | bool AdjustProteinMolInfoToMatchCDS(CMolInfo& molinfo, const CSeq_feat& cds) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:463:39: warning: 'bool ncbi::objects::edit::AdjustProteinMolInfoToMatchCDS(ncbi::objects::CMolInfo&, const ncbi::objects::CSeq_feat&)' is deprecated [-Wdeprecated-declarations] - 463 | AdjustProteinMolInfoToMatchCDS(new_molinfo_desc->SetMolinfo(), cds); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:366:6: note: declared here - 366 | bool AdjustProteinMolInfoToMatchCDS(CMolInfo& molinfo, const CSeq_feat& cds) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Object_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Object_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window_pattern.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_util.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window_pattern.cpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:40, @@ -36139,9 +35615,9 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/string_constraint.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/seqid_guesser.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_window.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -36149,17 +35625,13 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -NTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_ascii.cpp -o seq_masker_istat_ascii.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_uset_simple.cpp -o seq_masker_uset_simple.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_factory.cpp -o seq_masker_istat_factory.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_bin.cpp -o seq_masker_ostat_bin.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_uset_array.cpp -o seq_masker_uset_array.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_bin.cpp -o seq_masker_istat_bin.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here @@ -36171,6 +35643,52 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_fasta.cpp -o sequence_istream_fasta.o +/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_bdb.cpp -o sequence_istream_bdb.o +/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp -o dbindex.o +/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp -o dbindex_factory.o +/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_search.cpp -o dbindex_search.o +/bin/rm -f libxalgoblastdbindex.so .libxalgoblastdbindex.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxalgoblastdbindex.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC sequence_istream_fasta.o sequence_istream_bdb.o dbindex.o dbindex_factory.o dbindex_search.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast -lseqdb -lxobjread -lxobjutil -lxobjmgr -lseqset -lseq -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgoblastdbindex.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxalgoblastdbindex.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgoblastdbindex.so +/bin/ln -f .xalgoblastdbindex.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgoblastdbindex.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' +cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=writedb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test TMPL=writedb_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp: In function 'ncbi::SIZE_TYPE ncbi::objects::edit::FindWithOptions(const std::string&, const std::string&, ncbi::SIZE_TYPE, bool, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp:47:25: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] + 47 | pos = NStr::Find(str, pattern, pos, NPOS, NStr::eFirst, str_case); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/parse_text_options.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here + 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, + | ^~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_bin.hpp:36, @@ -36265,25 +35783,17 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Object_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Object_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt.cpp:42: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/criteria_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -36374,14 +35884,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt_ascii.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_ascii.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -36394,6 +35899,39 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ @@ -36403,9 +35941,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -36421,9 +35959,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -36439,9 +35977,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -36457,9 +35995,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -36469,86 +36007,117 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp: In function 'ncbi::SIZE_TYPE ncbi::objects::edit::FindWithOptions(const std::string&, const std::string&, ncbi::SIZE_TYPE, bool, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp:47:25: warning: 'static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)' is deprecated [-Wdeprecated-declarations] - 47 | pos = NStr::Find(str, pattern, pos, NPOS, NStr::eFirst, str_case); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/parse_text_options.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:5344:11: note: declared here - 5344 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern, - | ^~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_ascii.hpp:39: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_seqid.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/pairwise_aln.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_builders.hpp:39: +In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', + inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, + inlined from 'ncbi::CAlnSeqId::CAlnSeqId(const ncbi::objects::CSeq_id&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_seqid.hpp:125:5, + inlined from 'void ncbi::BuildAln(TAnchoredAlnVec&, CAnchoredAln&, const CAlnUserOptions&, TAlnSeqIdIRef)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_builders.cpp:702:61: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 91 | if ( m_LockCounter.Add(-1) <= 0 ) { + | ^~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_builders.hpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void ncbi::BuildAln(TAnchoredAlnVec&, CAnchoredAln&, const CAlnUserOptions&, TAlnSeqIdIRef)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +NTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_ascii.cpp -o seq_masker_istat_ascii.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_uset_simple.cpp -o seq_masker_uset_simple.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_factory.cpp -o seq_masker_istat_factory.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_bin.cpp -o seq_masker_ostat_bin.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_uset_array.cpp -o seq_masker_uset_array.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_bin.cpp -o seq_masker_istat_bin.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/source_edit.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/source_edit.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/source_edit.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp -o seq_writer.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_dataextract.cpp -o blastdb_dataextract.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_formatter.cpp -o blastdb_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_formatter.cpp -o seq_formatter.o +/bin/rm -f libblastdb_format.so .libblastdb_format.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libblastdb_format.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC seq_writer.o blastdb_dataextract.o blastdb_formatter.o seq_formatter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjutil -lxobjmgr -lseq -lxser -lsequtil -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblastdb_format.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblastdb_format.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastdb_format.so +/bin/ln -f .blastdb_format.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastdb_format.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +cd algo/blast/dbindex/makeindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=makeindex LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp: In member function 'std::string& ncbi::CSparseAln::GetAlnSeqString(ncbi::IAlnExplorer::TNumrow, std::string&, const ncbi::IAlnExplorer::TSignedRange&, bool) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:702:46: warning: comparison of integer expressions of different signedness: 'ncbi::COpenRange::position_type' {aka 'int'} and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 702 | if (translate && aln_range.GetLength() >= trim_from + trim_to) { + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_oascii.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_oascii.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -36639,11 +36208,82 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex TMPL=makeindex -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/string_constraint.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/seqid_guesser.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp:32: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_autoinit.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:33: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:606:41, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::objects::CScopeInfo_RefBase::~CScopeInfo_RefBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:611:7, + inlined from 'ncbi::objects::CScopeInfo_Ref::~CScopeInfo_Ref()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:634:7, + inlined from 'ncbi::objects::CSeq_entry_Handle::~CSeq_entry_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_handle.hpp:106:27, + inlined from 'ncbi::objects::CSeq_entry_EditHandle::~CSeq_entry_EditHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_handle.hpp:253:27, + inlined from 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = const ncbi::objects::CSeq_entry_EditHandle]' at /usr/include/c++/12/bits/unique_ptr.h:95:2: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = const ncbi::objects::CSeq_entry_EditHandle]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_selector.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:38: +In member function 'void ncbi::objects::CScopeInfo_Base::RemoveInfoLock()', + inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:605:33, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::objects::CScopeInfo_RefBase::~CScopeInfo_RefBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:611:7, + inlined from 'ncbi::objects::CScopeInfo_Ref::~CScopeInfo_Ref()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:634:7, + inlined from 'ncbi::objects::CSeq_entry_Handle::~CSeq_entry_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_handle.hpp:106:27, + inlined from 'ncbi::objects::CSeq_entry_EditHandle::~CSeq_entry_EditHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_handle.hpp:253:27, + inlined from 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = const ncbi::objects::CSeq_entry_EditHandle]' at /usr/include/c++/12/bits/unique_ptr.h:95:2: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:570:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 570 | if ( m_LockCounter.Add(-1) <= 0 ) { + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = const ncbi::objects::CSeq_entry_EditHandle]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt_bin.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_bin.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt_ascii.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_ascii.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -36734,49 +36374,20 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp: In member function 'bool ncbi::objects::edit::CFindITSParser::IsLengthTooLarge(const std::string&, int, int, const std::vector&, const std::vector&, const std::vector&, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp:259:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 259 | for (int j = i + 1; j < spans.size(); j++) - | ~~^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_fasta.cpp -o sequence_istream_fasta.o -/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_bdb.cpp -o sequence_istream_bdb.o -/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex.cpp -o dbindex.o -/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp -o dbindex_factory.o -/usr/bin/g++ -std=gnu++14 -c -DDO_INLINE -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_search.cpp -o dbindex_search.o -/bin/rm -f libxalgoblastdbindex.so .libxalgoblastdbindex.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxalgoblastdbindex.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC sequence_istream_fasta.o sequence_istream_bdb.o dbindex.o dbindex_factory.o dbindex_search.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast -lseqdb -lxobjread -lxobjutil -lxobjmgr -lseqset -lseq -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_obinary.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_obinary.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -36867,40 +36478,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -impl/if_diff.sh /bin/ln -f libxalgoblastdbindex.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxalgoblastdbindex.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgoblastdbindex.so -/bin/ln -f .xalgoblastdbindex.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgoblastdbindex.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -cd algo/blast/dbindex/makeindex/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=makeindex LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex TMPL=makeindex -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -37009,69 +36607,37 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbexpert.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp: In function 'bool ncbi::objects::edit::AdjustForCDSPartials(const ncbi::objects::CSeq_feat&, ncbi::objects::CSeq_entry_Handle)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:457:57: warning: 'bool ncbi::objects::edit::AdjustProteinMolInfoToMatchCDS(ncbi::objects::CMolInfo&, const ncbi::objects::CSeq_feat&)' is deprecated [-Wdeprecated-declarations] + 457 | any_change |= AdjustProteinMolInfoToMatchCDS((*it)->SetMolinfo(), cds); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:366:6: note: declared here + 366 | bool AdjustProteinMolInfoToMatchCDS(CMolInfo& molinfo, const CSeq_feat& cds) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:463:39: warning: 'bool ncbi::objects::edit::AdjustProteinMolInfoToMatchCDS(ncbi::objects::CMolInfo&, const ncbi::objects::CSeq_feat&)' is deprecated [-Wdeprecated-declarations] + 463 | AdjustProteinMolInfoToMatchCDS(new_molinfo_desc->SetMolinfo(), cds); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/cds_fix.cpp:366:6: note: declared here + 366 | bool AdjustProteinMolInfoToMatchCDS(CMolInfo& molinfo, const CSeq_feat& cds) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_container.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_container.cpp:37: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CSeqMaskerIstat; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CSeqMaskerIstat; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::CSeqMasker::CSeqMasker(const std::string&, Uint1, Uint4, Uint1, Uint4, Uint4, Uint4, Uint4, Uint4, Uint4, bool, Uint4, Uint4, Uint4, Uint1, const std::string&, Uint1, bool, Uint4, bool)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:144:1: + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::CAlnContainer::const_iterator ncbi::CAlnContainer::insert(const ncbi::objects::CSeq_align&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_container.cpp:89:69: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CSeqMasker::CSeqMasker(const std::string&, Uint1, Uint4, Uint1, Uint4, Uint4, Uint4, Uint4, Uint4, Uint4, bool, Uint4, Uint4, Uint4, Uint1, const std::string&, Uint1, bool, Uint4, bool)': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CAlnContainer::const_iterator ncbi::CAlnContainer::insert(const ncbi::objects::CSeq_align&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/main.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -37180,16 +36746,68 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/source_edit.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/source_edit.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/source_edit.cpp:32: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ URCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp -o rna_edit.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp -o remote_updater.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/parse_text_options.cpp -o parse_text_options.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/publication_edit.cpp -o publication_edit.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp -o gap_trim.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp -o external_annots.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagaIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propaga/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_cache_boost.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_cache_boost.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_oascii.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_oascii.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -37280,13 +36898,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp: In member function 'std::string& ncbi::CSparseAln::GetAlnSeqString(ncbi::IAlnExplorer::TNumrow, std::string&, const ncbi::IAlnExplorer::TSignedRange&, bool) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:702:46: warning: comparison of integer expressions of different signedness: 'ncbi::COpenRange::position_type' {aka 'int'} and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 702 | if (translate && aln_range.GetLength() >= trim_from + trim_to) { - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/main.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp: In member function 'bool ncbi::objects::edit::CFindITSParser::IsLengthTooLarge(const std::string&, int, int, const std::vector&, const std::vector&, const std::vector&, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/rna_edit.cpp:259:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 259 | for (int j = i + 1; j < spans.size(); j++) + | ~~^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat_opt_bin.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_bin.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -37377,100 +36997,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -opt.cpp -o seq_masker_ostat_opt.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_ascii.cpp -o seq_masker_ostat_opt_ascii.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_uset_hash.cpp -o seq_masker_uset_hash.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_oascii.cpp -o seq_masker_istat_oascii.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_bin.cpp -o seq_masker_ostat_opt_bin.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_obinary.cpp -o seq_masker_istat_obinary.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_cache_boost.cpp -o seq_masker_cache_boost.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-coIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbnative.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbload_util.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/gbload_util.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbload_util.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feattable_edit.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_obinary.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_obinary.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -37561,56 +37091,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::AddReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, - inlined from 'void ncbi::CConstRef::x_LockFromPtr() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1737:36, - inlined from 'ncbi::CConstRef::CConstRef(TObjectType*) [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1295:26, - inlined from 'ncbi::CAlnSeqId::CAlnSeqId(const ncbi::objects::CSeq_id&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_seqid.hpp:121:11, - inlined from 'void ncbi::CAlnSeqIdsExtract::operator()(const ncbi::objects::CSeq_align&, TIdVec&) const [with TAlnSeqId = ncbi::CAlnSeqId; TIdConverter = ncbi::CScopeAlnSeqIdConverter]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/seqids_extractor.hpp:162:29: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 494 | CheckReferenceOverflow(newCount - eCounterStep); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::CAlnSeqIdsExtract::operator()(const ncbi::objects::CSeq_align&, TIdVec&) const [with TAlnSeqId = ncbi::CAlnSeqId; TIdConverter = ncbi::CScopeAlnSeqIdConverter]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_autoinit.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_entry_edit.cpp:33: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:606:41, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::objects::CScopeInfo_RefBase::~CScopeInfo_RefBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:611:7, - inlined from 'ncbi::objects::CScopeInfo_Ref::~CScopeInfo_Ref()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:634:7, - inlined from 'ncbi::objects::CSeq_entry_Handle::~CSeq_entry_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_handle.hpp:106:27, - inlined from 'ncbi::objects::CSeq_entry_EditHandle::~CSeq_entry_EditHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_handle.hpp:253:27, - inlined from 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = const ncbi::objects::CSeq_entry_EditHandle]' at /usr/include/c++/12/bits/unique_ptr.h:95:2: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CSeqMaskerIstat; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CSeqMaskerIstat; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::CSeqMasker::CSeqMasker(const std::string&, Uint1, Uint4, Uint1, Uint4, Uint4, Uint4, Uint4, Uint4, Uint4, bool, Uint4, Uint4, Uint4, Uint1, const std::string&, Uint1, bool, Uint4, bool)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker.cpp:144:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = const ncbi::objects::CSeq_entry_EditHandle]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_selector.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:38: -In member function 'void ncbi::objects::CScopeInfo_Base::RemoveInfoLock()', - inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:605:33, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::objects::CScopeInfo_RefBase::~CScopeInfo_RefBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:611:7, - inlined from 'ncbi::objects::CScopeInfo_Ref::~CScopeInfo_Ref()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:634:7, - inlined from 'ncbi::objects::CSeq_entry_Handle::~CSeq_entry_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_handle.hpp:106:27, - inlined from 'ncbi::objects::CSeq_entry_EditHandle::~CSeq_entry_EditHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_entry_handle.hpp:253:27, - inlined from 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = const ncbi::objects::CSeq_entry_EditHandle]' at /usr/include/c++/12/bits/unique_ptr.h:95:2: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:570:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 570 | if ( m_LockCounter.Add(-1) <= 0 ) { - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = const ncbi::objects::CSeq_entry_EditHandle]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::CSeqMasker::CSeqMasker(const std::string&, Uint1, Uint4, Uint1, Uint4, Uint4, Uint4, Uint4, Uint4, Uint4, bool, Uint4, Uint4, Uint4, Uint1, const std::string&, Uint1, bool, Uint4, bool)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ @@ -37625,14 +37114,44 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_factory.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_factory.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_ascii.hpp:39: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbexpert.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_cache_boost.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_cache_boost.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME _/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -37642,31 +37161,11 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ +_DATE__ " " __TIME__ | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -37682,9 +37181,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -37700,9 +37199,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -37718,9 +37217,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -37736,9 +37235,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -37748,78 +37247,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_container.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_container.cpp:37: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::CAlnContainer::const_iterator ncbi::CAlnContainer::insert(const ncbi::objects::CSeq_align&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_container.cpp:89:69: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CAlnContainer::const_iterator ncbi::CAlnContainer::insert(const ncbi::objects::CSeq_align&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbexpert.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -37829,24 +37256,16 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_writer.cpp -o seq_writer.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_dataextract.cpp -o blastdb_dataextract.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/blastdb_formatter.cpp -o blastdb_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/seq_formatter.cpp -o seq_formatter.o -/bin/rm -f libblastdb_format.so .libblastdb_format.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libblastdb_format.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC seq_writer.o blastdb_dataextract.o blastdb_formatter.o seq_formatter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqdb -lxobjutil -lxobjmgr -lseq -lxser -lsequtil -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblastdb_format.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblastdb_format.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastdb_format.so -/bin/ln -f .blastdb_format.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastdb_format.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -cd objtools/blast/blastdb_format/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_format_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat.cpp:32: +opt.cpp -o seq_masker_ostat_opt.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_ascii.cpp -o seq_masker_ostat_opt_ascii.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_uset_hash.cpp -o seq_masker_uset_hash.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_oascii.cpp -o seq_masker_istat_oascii.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_bin.cpp -o seq_masker_ostat_opt_bin.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_obinary.cpp -o seq_masker_istat_obinary.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_cache_boost.cpp -o seq_masker_cache_boost.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-coIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -37937,111 +37356,61 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:59: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/remote_updater.hpp:129:4: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 129 | auto_ptr m_taxClient; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Org_ref_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Org_ref.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon3/itaxon3.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon3/taxon3.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id2/reader_id2.cpp -o reader_id2.o +/bin/rm -f libncbi_xreader_id2.a .libncbi_xreader_id2.a.stamp +/bin/rm -f libncbi_xreader_id2.so .libncbi_xreader_id2.so.stamp +ar cr libncbi_xreader_id2.a reader_id2.o +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader_id2.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC reader_id2.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id2.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader_id2.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id2.a +/bin/ln -f .ncbi_xreader_id2-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id2-static.dep +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader_id2.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id2.so +/bin/ln -f .ncbi_xreader_id2.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id2.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +cd objtools/blast/blastdb_format/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_format_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test TMPL=blastdb_format_unit_test -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:292:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 292 | auto_ptr m_taxon; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:293:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 293 | auto_ptr m_cache; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp: In member function 'void ncbi::objects::edit::CRemoteUpdater::UpdateOrgFromTaxon(FLogger, ncbi::objects::CSeq_entry_EditHandle&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:604:31: warning: 'void ncbi::objects::edit::CRemoteUpdater::UpdateOrgFromTaxon(FLogger, ncbi::objects::CSeqdesc&)' is deprecated [-Wdeprecated-declarations] - 604 | UpdateOrgFromTaxon(logger, (CSeqdesc&)*desc_it); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:296:6: note: declared here - 296 | void CRemoteUpdater::UpdateOrgFromTaxon(FLogger logger, CSeqdesc& obj) - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader_impl.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader_impl.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -38269,16 +37638,17 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_factory.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_factory.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -38294,24 +37664,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/gap_trim.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -38319,10 +37675,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/score_builder_base.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -38338,18 +37691,33 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_oascii.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/score_builder_base.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -38365,64 +37733,292 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_bin.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_ostat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; - | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/reader_cache.cpp -o reader_cache.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/cache/writer_cache.cpp -o writer_cache.o +/bin/rm -f libncbi_xreader_cache.a .libncbi_xreader_cache.a.stamp +/bin/rm -f libncbi_xreader_cache.so .libncbi_xreader_cache.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader_cache.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC reader_cache.o writer_cache.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lm -lpthread +ar cr libncbi_xreader_cache.a reader_cache.o writer_cache.o +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_cache.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader_cache.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_cache.a +/bin/ln -f .ncbi_xreader_cache-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_cache-static.dep +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_cache.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader_cache.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_cache.so +/bin/ln -f .ncbi_xreader_cache.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_cache.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/main.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CTSE_Lock::~CTSE_Lock()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_lock.hpp:61:9, + inlined from 'virtual void ncbi::objects::CRemoteBlastDbDataLoader::GetBlobs(ncbi::objects::CDataLoader::TTSE_LockSets&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp:192:5: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::objects::CRemoteBlastDbDataLoader::GetBlobs(ncbi::objects::CDataLoader::TTSE_LockSets&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/external_annots.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat.cpp:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/gap_trim.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_oascii.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -38438,41 +38034,45 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr m_Indices; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 154 | auto_ptr m_Indices; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/external_annots.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_obinary.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp: In member function 'void ncbi::objects::CGBDataLoader_Native::x_CreateDriver(const ncbi::objects::CGBLoaderParams&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:291:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 291 | auto_ptr app_params; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; | ^~~~~~~~ @@ -38490,7 +38090,11 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_obinary.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_bin.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -38506,59 +38110,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CTSE_Lock::~CTSE_Lock()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_lock.hpp:61:9, - inlined from 'virtual void ncbi::objects::CRemoteBlastDbDataLoader::GetBlobs(ncbi::objects::CDataLoader::TTSE_LockSets&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp:192:5: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::objects::CRemoteBlastDbDataLoader::GetBlobs(ncbi::objects::CDataLoader::TTSE_LockSets&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:43: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:39: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -38569,60 +38138,75 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:32: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | templaast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:59: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/remote_updater.hpp:129:4: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 129 | auto_ptr m_taxClient; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_cache_boost.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Org_ref_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Org_ref.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon3/itaxon3.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon3/taxon3.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -te class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp:57: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:292:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 292 | auto_ptr m_taxon; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:293:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 293 | auto_ptr m_cache; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -38647,28 +38231,84 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp: In member function 'void ncbi::objects::edit::CRemoteUpdater::UpdateOrgFromTaxon(FLogger, ncbi::objects::CSeq_entry_EditHandle&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:604:31: warning: 'void ncbi::objects::edit::CRemoteUpdater::UpdateOrgFromTaxon(FLogger, ncbi::objects::CSeqdesc&)' is deprecated [-Wdeprecated-declarations] + 604 | UpdateOrgFromTaxon(logger, (CSeqdesc&)*desc_it); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/remote_updater.cpp:296:6: note: declared here + 296 | void CRemoteUpdater::UpdateOrgFromTaxon(FLogger logger, CSeqdesc& obj) + | ^~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:39: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/main.cpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/dbindex/sequence_istream_fasta.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbexpert.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp -o bdbloader_rmt.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/remote_blastdb_adapter.cpp -o remote_blastdb_adapter.o +/bin/rm -f libncbi_xloader_blastdb_rmt.so .libncbi_xloader_blastdb_rmt.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xloader_blastdb_rmt.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC bdbloader_rmt.o remote_blastdb_adapter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xloader_blastdb -lblast_services -lxobjmgr -lseq -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_blastdb_rmt.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xloader_blastdb_rmt.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_blastdb_rmt.so +/bin/ln -f .ncbi_xloader_blastdb_rmt.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_blastdb_rmt.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -38700,20 +38340,11 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp:57: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -38721,7 +38352,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_cache_boost.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -38737,48 +38370,80 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp: In member function 'virtual void ncbi::CMkIndexApplication::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp:67:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 67 | auto_ptr< CArgDescriptions > arg_desc( new CArgDescriptions ); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp: In member function 'virtual void ncbi::CMkIndexApplication::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp:67:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 67 | auto_ptr< CArgDescriptions > arg_desc( new CArgDescriptions ); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:39: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In function 'ncbi::CRef s_GetScope()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:558:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 558 | auto_ptr ois +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/feature_propagate.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_lmdb_unit_test.cpp -o writedb_lmdb_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie writedb_lmdb_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lwritedb -lseqdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o writedb_lmdb_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f writedb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f writedb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/writedb_lmdb_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -38791,12 +38456,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:44: @@ -38818,12 +38477,65 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:46: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:38: +In member function 'ncbi::CAlignRangeCollExtender::position_type ncbi::CAlignRangeCollExtender::GetSecondFrom() const [with TColl = ncbi::CAlignRangeCollectionList >]', + inlined from 'ncbi::CRange ncbi::CAlignRangeCollExtender::GetSecondRange() const [with TColl = ncbi::CAlignRangeCollectionList >]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/align_range_coll.hpp:1811:16, + inlined from 'void ncbi::CSparseAln::x_Build(const ncbi::CAnchoredAln&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:230:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/align_range_coll.hpp:1790:16: warning: '*(__vector(2) int*)((char*)&ext + offsetof(ncbi::CAlignRangeCollExtender > >,ncbi::CAlignRangeCollExtender > >::m_From))' may be used uninitialized [-Wmaybe-uninitialized] + 1790 | return m_From; + | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp: In member function 'void ncbi::CSparseAln::x_Build(const ncbi::CAnchoredAln&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:228:46: note: 'ext' declared here + 228 | CAlignRangeCollExtender ext(*m_Aln->GetPairwiseAlns()[row]); + | ^~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/id1/reader_id1.cpp -o reader_id1.o +/bin/rm -f libncbi_xreader_id1.a .libncbi_xreader_id1.a.stamp +ar cr libncbi_xreader_id1.a reader_id1.o +/bin/rm -f libncbi_xreader_id1.so .libncbi_xreader_id1.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xreader_id1.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC reader_id1.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id1.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader_id1.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id1.a +/bin/ln -f .ncbi_xreader_id1-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id1-static.dep +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xreader_id1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xreader_id1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id1.so +/bin/ln -f .ncbi_xreader_id1.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xreader_id1.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' +cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xloader_genbank UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank TMPL=ncbi_xloader_genbank -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -38839,41 +38551,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:38: -In member function 'ncbi::CAlignRangeCollExtender::position_type ncbi::CAlignRangeCollExtender::GetSecondFrom() const [with TColl = ncbi::CAlignRangeCollectionList >]', - inlined from 'ncbi::CRange ncbi::CAlignRangeCollExtender::GetSecondRange() const [with TColl = ncbi::CAlignRangeCollectionList >]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/align_range_coll.hpp:1811:16, - inlined from 'void ncbi::CSparseAln::x_Build(const ncbi::CAnchoredAln&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:230:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/align_range_coll.hpp:1790:16: warning: '*(__vector(2) int*)((char*)&ext + offsetof(ncbi::CAlignRangeCollExtender > >,ncbi::CAlignRangeCollExtender > >::m_From))' may be used uninitialized [-Wmaybe-uninitialized] - 1790 | return m_From; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp: In member function 'void ncbi::CSparseAln::x_Build(const ncbi::CAnchoredAln&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.cpp:228:46: note: 'ext' declared here - 228 | CAlignRangeCollExtender ext(*m_Aln->GetPairwiseAlns()[row]); - | ^~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function 'void writedb::CBuildDatabase_WGS_gap::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:2825:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2825 | auto_ptr ois - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_lmdb_unit_test.cpp -o writedb_lmdb_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie writedb_lmdb_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lwritedb -lseqdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o writedb_lmdb_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f writedb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f writedb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/writedb_lmdb_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp -o bdbloader_rmt.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/remote_blastdb_adapter.cpp -o remote_blastdb_adapter.o -/bin/rm -f libncbi_xloader_blastdb_rmt.so .libncbi_xloader_blastdb_rmt.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xloader_blastdb_rmt.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC bdbloader_rmt.o remote_blastdb_adapter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xloader_blastdb -lblast_services -lxobjmgr -lseq -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_blastdb_rmt.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xloader_blastdb_rmt.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_blastdb_rmt.so -/bin/ln -f .ncbi_xloader_blastdb_rmt.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_blastdb_rmt.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_config.hpp:46, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.cpp:36: @@ -38890,23 +38567,233 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/edit/feature_propagate.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:64: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:66: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ @@ -38916,7 +38803,9 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_formatter_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -38924,34 +38813,12 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_seqid.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -38967,31 +38834,15 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_dup_table.hpp:46, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp:50: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -39006,64 +38857,21 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_edit.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_edit.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -39082,6 +38890,28 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_seqid.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -39094,27 +38924,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/blob_id.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:42: -In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', - inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, - inlined from 'ncbi::CConstRef ncbi::objects::CGBDataLoader::GetSatSatkey(const ncbi::objects::CSeq_id&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:551:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 91 | if ( m_LockCounter.Add(-1) <= 0 ) { - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CConstRef ncbi::objects::CGBDataLoader::GetSatSatkey(const ncbi::objects::CSeq_id&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -39122,12 +38935,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_seqid.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -39143,43 +38951,48 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp:48: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -39195,40 +39008,22 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esearch.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/pub_fix.cpp:63: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 198 | auto_ptr m_Stream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/biblio/ArticleId_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/biblio/ArticleId.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/pub_fix.cpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_formatter_unit_test.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_edit.cpp:33: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -39236,12 +39031,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdbcommon.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_reader/seqdb.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_seqid.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_edit.cpp:32: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -39257,6 +39047,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: @@ -39266,14 +39074,18 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In function 'ncbi::CRef s_GetScope()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:558:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 558 | auto_ptr ois | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -39283,13 +39095,53 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/esearch.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/pub_fix.cpp:63: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/eutils.hpp:198:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 198 | auto_ptr m_Stream; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/biblio/ArticleId_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/biblio/ArticleId.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/pub_fix.cpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:85:69: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] 85 | CSeqFormatterConfig config = CSeqFormatterConfig()); | ^ @@ -39314,15 +39166,18 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:43:24: note: declared here 43 | struct NCBI_DEPRECATED CSeqFormatterConfig { | ^~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -39335,27 +39190,39 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=seqdb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_lmdb_unit_test.cpp -o seqdb_lmdb_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqdb_lmdb_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lseqdb -lwritedb -lxobjutil -lblastdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -o seqdb_lmdb_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seqdb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_lmdb_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_dup_table.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function 'void writedb::CBuildDatabase_WGS_gap::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:2825:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2825 | auto_ptr ois | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] 94 | objects::CFastaReader::fAllSeqIds | | ^~~~~~~~~~ @@ -39368,18 +39235,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Na_strand_.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Na_strand.hpp:42, @@ -39398,39 +39253,37 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbnative.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_annot; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, @@ -39494,13 +39347,57 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp: In member function 'virtual bool ncbi::CWinMaskUtil::CIdSet_TextMatch::find(const ncbi::objects::CBioseq_Handle&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:130:39: warning: 'std::string ncbi::objects::sequence::GetTitle(const ncbi::objects::CBioseq_Handle&, TGetTitleFlags)' is deprecated [-Wdeprecated-declarations] - 130 | string id_str = sequence::GetTitle( bsh ); - | ~~~~~~~~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:289:8: note: declared here - 289 | string GetTitle(const CBioseq_Handle& hnd, TGetTitleFlags flags = 0); - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbload_util.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/gbload_util.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbload_util.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp:336:15: warning: 'std::string ncbi::objects::edit::GetTextObjectDescription(const ncbi::objects::CSeq_feat&, ncbi::objects::CScope&, const std::string&)' defined but not used [-Wunused-function] + 336 | static string GetTextObjectDescription(const CSeq_feat& seq_feat, CScope& scope, const string& product) + | ^~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_dup_table.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp: In member function 'void seq_writer::TestNoFormatSpecifier::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:54:41: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] 54 | BOOST_REQUIRE_THROW(CSeqFormatter f(format_spec, db, std::cout), @@ -39639,6 +39536,39 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_writer.hpp:77:50: note: declared here 77 | class NCBI_BLASTDB_FORMAT_EXPORT NCBI_DEPRECATED CSeqFormatter | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader_impl.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader_impl.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, @@ -39652,13 +39582,104 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp: In member function 'virtual bool ncbi::CWinMaskUtil::CIdSet_TextMatch::find(const ncbi::objects::CBioseq_Handle&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp:130:39: warning: 'std::string ncbi::objects::sequence::GetTitle(const ncbi::objects::CBioseq_Handle&, TGetTitleFlags)' is deprecated [-Wdeprecated-declarations] + 130 | string id_str = sequence::GetTitle( bsh ); + | ~~~~~~~~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:289:8: note: declared here + 289 | string GetTitle(const CBioseq_Handle& hnd, TGetTitleFlags flags = 0); + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=seqdb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_lmdb_unit_test.cpp -o seqdb_lmdb_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqdb_lmdb_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lseqdb -lwritedb -lxobjutil -lblastdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -o seqdb_lmdb_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seqdb_lmdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_lmdb_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp: In member function 'void ncbi::objects::CGBDataLoader_Native::x_CreateDriver(const ncbi::objects::CGBLoaderParams&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp:291:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 291 | auto_ptr app_params; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader_snp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/processor.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/snp_annot_info.hpp:154:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 154 | auto_ptr m_Indices; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp: In member function 'void ncbi::objects::edit::CFeatGapInfo::CollectGaps(const ncbi::objects::CSeq_loc&, ncbi::objects::CScope&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gap_trim.cpp:109:21: warning: 'gap_start' may be used uninitialized [-Wmaybe-uninitialized] 109 | TSeqPos gap_start; | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp:336:15: warning: 'std::string ncbi::objects::edit::GetTextObjectDescription(const ncbi::objects::CSeq_feat&, ncbi::objects::CScope&, const std::string&)' defined but not used [-Wunused-function] - 336 | static string GetTextObjectDescription(const CSeq_feat& seq_feat, CScope& scope, const string& product) - | ^~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/data_source.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, @@ -39677,14 +39698,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/main.cpp -o main.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp -o mkindex_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie main.o mkindex_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxalgoblastdbindex -lblast -lcomposition_adjustment -lseqdb -lblastdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -ltables -lxconnect -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o makembindex -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/makembindex -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_ci.cpp -o sparse_ci.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp -o alntext.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/score_builder_base.cpp -o score_builder_base.o @@ -39696,16 +39709,179 @@ /bin/ln -f .xalnmgr.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalnmgr.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp -o gbloader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp -o gbnative.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbload_util.cpp -o gbload_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader.cpp -o psg_loader.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader_impl.cpp -o psg_loader_impl.o -/bin/rm -f libncbi_xloader_genbank.a .libncbi_xloader_genbank.a.stamp -/bin/rm -f libncbi_xloader_genbank.so .libncbi_xloader_genbank.so.stamp -ar cr libncbi_xloader_genbank.a gbloader.o gbnative.o gbload_util.o psg_loader.o psg_loader_impl.o -/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xloader_genbank.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC gbloader.o gbnative.o gbload_util.o psg_loader.o psg_loader_impl.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader_cache -lncbi_xreader_id1 -lncbi_xreaderte.cpp -o feature_propagate.o +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/main.cpp -o main.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/makeindex/mkindex_app.cpp -o mkindex_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie main.o mkindex_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxalgoblastdbindex -lblast -lcomposition_adjustment -lseqdb -lblastdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -ltables -lxconnect -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o makembindex +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f makembindex /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/makembindex +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/blob_id.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:42: +In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', + inlined from 'void ncbi::objects::CSeq_id_InfoLocker::Unlock(const ncbi::objects::CSeq_id_Info*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:141:29, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_id_Info; Locker = ncbi::objects::CSeq_id_InfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::objects::CSeq_id_Handle::~CSeq_id_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:153:7, + inlined from 'ncbi::CConstRef ncbi::objects::CGBDataLoader::GetSatSatkey(const ncbi::objects::CSeq_id&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:551:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/seq_id_handle.hpp:91:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 91 | if ( m_LockCounter.Add(-1) <= 0 ) { + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'ncbi::CConstRef ncbi::objects::CGBDataLoader::GetSatSatkey(const ncbi::objects::CSeq_id&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +mpile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp -o win_mask_counts_converter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp -o win_mask_dup_table.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp -o win_mask_gen_counts.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp -o win_mask_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.cpp -o win_mask_config.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat.cpp -o seq_masker_istat.o +/bin/rm -f libxalgowinmask.so .libxalgowinmask.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxalgowinmask.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC seq_masker.o seq_masker_score_mean.o seq_masker_score_mean_glob.o seq_masker_score_min.o seq_masker_util.o seq_masker_window.o seq_masker_window_ambig.o seq_masker_window_pattern.o seq_masker_window_pattern_ambig.o seq_masker_ostat_factory.o seq_masker_ostat.o seq_masker_ostat_ascii.o seq_masker_istat_ascii.o seq_masker_uset_simple.o seq_masker_istat_factory.o seq_masker_ostat_bin.o seq_masker_uset_array.o seq_masker_istat_bin.o seq_masker_ostat_opt.o seq_masker_ostat_opt_ascii.o seq_masker_uset_hash.o seq_masker_istat_oascii.o seq_masker_ostat_opt_bin.o seq_masker_istat_obinary.o seq_masker_cache_boost.o win_mask_counts_converter.o win_mask_dup_table.o win_mask_gen_counts.o win_mask_util.o win_mask_config.o seq_masker_istat.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqmasks_io -lxobjread -lxobjutil -lxobjmgr -lseq -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgowinmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxalgowinmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgowinmask.so +/bin/ln -f .xalgowinmask.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgowinmask.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' +cd algo/blast/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xblast UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api TMPL=xblast -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux.cpp -o blast_aux.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_cxx.cpp -o blast_options_cxx.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_local_priv.cpp -o blast_options_local_priv.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_builder.cpp -o blast_options_builder.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp -o blast_setup_cxx.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.cpp -o blast_seqalign.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-forIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp -o seq_writer_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_formatter_unit_test.cpp -o seq_formatter_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seq_writer_unit_test.o seq_formatter_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastdb_format -lxobjutil -lseqdb -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -o blastdb_format_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_format_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' +te.cpp -o feature_propagate.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_object_description.cpp -o text_object_description.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_edit.cpp -o seq_edit.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/pub_fix.cpp -o pub_fix.o @@ -39734,7 +39910,859 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp -o cleanup_utils.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/gene_qual_normalization.cpp -o gene_qual_normalization.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp -o cleanup_user_object.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blas_id2 -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lz -lbz2 -lm -lpthread +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blasIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_prot_options.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/disc_nucl_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/disc_nucl_options.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/gene_qual_normalization.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/gene_qual_normalization.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_builder.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_rps_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_rps_options.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_exception.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_cxx.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux.cpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_nucl_options.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp: In member function 'char* ncbi::blast::CBlastOptionsHandle::GetFilterString() const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:100:35: warning: 'char* ncbi::blast::CBlastOptions::GetFilterString() const' is deprecated [-Wdeprecated-declarations] + 100 | return m_Opts->GetFilterString(); /* NCBI_FAKE_WARNING */ + | ~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here + 178 | NCBI_DEPRECATED char* GetFilterString() const; + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp: In member function 'void ncbi::blast::CBlastOptionsHandle::SetFilterString(const char*, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:106:28: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] + 106 | m_Opts->SetFilterString(f, clear); /* NCBI_FAKE_WARNING */ + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here + 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_options.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/util_misc.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/cleanup/cleanup.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_author.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_author.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'ncbi::blast::CBlastProteinOptionsHandle::CBlastProteinOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_prot_options.cpp:54:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastProteinOptionsHandle::CBlastProteinOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_local_priv.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_local_priv.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_exception.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_local_priv.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/gene_qual_normalization.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +mat-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp -o blast_options_handle.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_nucl_options.cpp -o blast_nucl_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/disc_nucl_options.cpp -o disc_nucl_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_prot_options.cpp -o blast_prot_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_options.cpp -o psiblast_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_rps_options.cpp -o blast_rps_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.sIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/cleanup/cleanup.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_pub.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_pub.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'virtual ncbi::blast::CBlastNucleotideOptionsHandle::~CBlastNucleotideOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:58:26, + inlined from 'ncbi::blast::CDiscNucleotideOptionsHandle::CDiscNucleotideOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/disc_nucl_options.cpp:52:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CDiscNucleotideOptionsHandle::CDiscNucleotideOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'ncbi::blast::CBlastRPSOptionsHandle::CBlastRPSOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_rps_options.cpp:53:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastRPSOptionsHandle::CBlastRPSOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::blast::CBlastRPSOptionsHandle::CBlastRPSOptionsHandle(ncbi::CRef)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_rps_options.cpp:56:30: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastRPSOptionsHandle::CBlastRPSOptionsHandle(ncbi::CRef)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/cleanup/capitalization_string.hpp:32, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::blast::CBlastOptionsHandle::CBlastOptionsHandle(EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:65:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastOptionsHandle::CBlastOptionsHandle(EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/fix_feature_id.cpp:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Feat_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Feat_id.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/fix_feature_id.cpp:31: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp: In static member function 'static bool ncbi::objects::CCleanup::s_AddNumToUserField(ncbi::objects::CUser_field&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:369:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 369 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetStrs().size()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:375:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 375 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetInts().size()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:381:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 381 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetReals().size()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:387:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector*>::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 387 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetOss().size()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp: In function 'void ncbi::objects::CapitalizeAfterApostrophe(std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:911:25: warning: comparison of integer expressions of different signedness: 'const int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 911 | if (rslt[0] != start) + | ~~~~~~~~^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp: In function 'void ncbi::objects::FixAffiliationShortWordsInElement(std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:950:29: warning: comparison of integer expressions of different signedness: 'const int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 950 | if (rslt[0] != start) + | ~~~~~~~~^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp: In function 'void ncbi::objects::FixOrdinalNumbers(std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:977:29: warning: comparison of integer expressions of different signedness: 'const int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 977 | if (rslt[0] != start) + | ~~~~~~~~^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, + inlined from 'virtual ncbi::blast::CBlastAdvancedProteinOptionsHandle::~CBlastAdvancedProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:56:26, + inlined from 'ncbi::blast::CPSIBlastOptionsHandle::CPSIBlastOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_options.cpp:55:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CPSIBlastOptionsHandle::CPSIBlastOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp -o gbloader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbnative.cpp -o gbnative.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbload_util.cpp -o gbload_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader.cpp -o psg_loader.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/psg_loader_impl.cpp -o psg_loader_impl.o +/bin/rm -f libncbi_xloader_genbank.a .libncbi_xloader_genbank.a.stamp +ar cr libncbi_xloader_genbank.a gbloader.o gbnative.o gbload_util.o psg_loader.o psg_loader_impl.o +/bin/rm -f libncbi_xloader_genbank.so .libncbi_xloader_genbank.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libncbi_xloader_genbank.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC gbloader.o gbnative.o gbload_util.o psg_loader.o psg_loader_impl.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xreader_cache -lncbi_xreader_id1 -lncbi_xreaderIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::blast::CBlastNucleotideOptionsHandle::CBlastNucleotideOptionsHandle(ncbi::CRef)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_nucl_options.cpp:56:30: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastNucleotideOptionsHandle::CBlastNucleotideOptionsHandle(ncbi::CRef)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'ncbi::blast::CBlastNucleotideOptionsHandle::CBlastNucleotideOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_nucl_options.cpp:52:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastNucleotideOptionsHandle::CBlastNucleotideOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +pecs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastx_options.cpp -o blastx_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastx_options.cpp -o tblastx_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastn_options.cpp -o tblastn_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpstblastn_options.cpp -o rpstblastn_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_nucl_options.cpp -o phiblast_nucl_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_prot_options.cpp -o phiblast_prot_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 _id2 -lncbi_xreader -lid2 -lxobjmgr -lid1 -lseqedit -lseqsplit -lsubmit -lgenome_collection -lseqset -lseq -lpub -lmedline -lbiblio -lgeneral -lseqcode -lxcompress -lxser -lsequtil -lxconnect -lxutil -lxncbi -lz -lbz2 -lm -lpthread /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_genbank.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib /bin/ln -f libncbi_xloader_genbank.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_genbank.a /bin/ln -f .ncbi_xloader_genbank-static.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_genbank-static.dep @@ -39744,53 +40772,88 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' cd objtools/align_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=align_format UNIX_PROJ="" sources= configurables=configurables.null -cd objtools/simple/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xobjsimple UNIX_PROJ="" sources= configurables=configurables.null -cd app/dustmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=dustmasker LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd objtools/simple/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xobjsimple UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd app/dustmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=dustmasker LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +cd app/winmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=winmasker LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format TMPL=align_format -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker TMPL=dustmasker -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format TMPL=align_format -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/simple TMPL=xobjsimple -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker TMPL=dustmasker -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker TMPL=winmasker -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -mpile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp -o win_mask_counts_converter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.cpp -o win_mask_dup_table.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_gen_counts.cpp -o win_mask_gen_counts.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_util.cpp -o win_mask_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.cpp -o win_mask_config.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat.cpp -o seq_masker_istat.o -/bin/rm -f libxalgowinmask.so .libxalgowinmask.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxalgowinmask.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC seq_masker.o seq_masker_score_mean.o seq_masker_score_mean_glob.o seq_masker_score_min.o seq_masker_util.o seq_masker_window.o seq_masker_window_ammake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/format_flags.cpp -o format_flags.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp -o align_format_util.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp -o showdefline.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp -o showalign.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp -o tabular.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/vectorscreen.cpp -o vectorscreen.o -/usr/bin/g++ -std=gnu++14 -cIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/usr/bin/g++ -std=gnu++14 -cmake[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/main.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -39902,9 +40965,8 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:46: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/main.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -40013,9 +41075,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -40028,14 +41095,85 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:55: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -40276,7 +41414,8 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:77: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -40406,8 +41545,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:77: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -40498,6 +41636,14 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -40516,31 +41662,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -40664,162 +41785,28 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp -o seq_writer_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_formatter_unit_test.cpp -o seq_formatter_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seq_writer_unit_test.o seq_formatter_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastdb_format -lxobjutil -lseqdb -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -o blastdb_format_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdb_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_format_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -big.o seq_masker_window_pattern.o seq_masker_window_pattern_ambig.o seq_masker_ostat_factory.o seq_masker_ostat.o seq_masker_ostat_ascii.o seq_masker_istat_ascii.o seq_masker_uset_simple.o seq_masker_istat_factory.o seq_masker_ostat_bin.o seq_masker_uset_array.o seq_masker_istat_bin.o seq_masker_ostat_opt.o seq_masker_ostat_opt_ascii.o seq_masker_uset_hash.o seq_masker_istat_oascii.o seq_masker_ostat_opt_bin.o seq_masker_istat_obinary.o seq_masker_cache_boost.o win_mask_counts_converter.o win_mask_dup_table.o win_mask_gen_counts.o win_mask_util.o win_mask_config.o seq_masker_istat.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqmasks_io -lxobjread -lxobjutil -lxobjmgr -lseq -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalgowinmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxalgowinmask.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalgowinmask.so -/bin/ln -f .xalgowinmask.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xalgowinmask.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' -cd algo/blast/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xblast UNIX_PROJ="" sources= configurables=configurables.null -cd app/winmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=winmasker LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api TMPL=xblast -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker TMPL=winmasker -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux.cpp -o blast_aux.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_cxx.cpp -o blast_options_cxx.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_local_priv.cpp -o blast_options_local_priv.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_builder.cpp -o blast_options_builder.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp -o blast_setup_cxx.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.cpp -o blast_seqalign.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-forIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/main.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -40928,86 +41915,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -41020,9 +41930,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker.hpp:41, @@ -41137,7 +42047,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:58: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -41145,22 +42055,19 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_autoinit.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:39: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41176,21 +42083,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:59: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:31: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41206,79 +42105,14 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/cleanup/capitalization_string.hpp:32, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/tblastx_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastx_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41286,7 +42120,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41302,27 +42139,14 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp: In function 'void ncbi::objects::CapitalizeAfterApostrophe(std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:911:25: warning: comparison of integer expressions of different signedness: 'const int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 911 | if (rslt[0] != start) - | ~~~~~~~~^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp: In function 'void ncbi::objects::FixAffiliationShortWordsInElement(std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:950:29: warning: comparison of integer expressions of different signedness: 'const int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 950 | if (rslt[0] != start) - | ~~~~~~~~^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp: In function 'void ncbi::objects::FixOrdinalNumbers(std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp:977:29: warning: comparison of integer expressions of different signedness: 'const int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 977 | if (rslt[0] != start) - | ~~~~~~~~^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:93:1: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 93 | auto_ptr CAlignFormatUtil::m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/fix_feature_id.cpp:32: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blastx_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastx_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41331,9 +42155,15 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Feat_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/Feat_id.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/fix_feature_id.cpp:31: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41349,68 +42179,69 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp: In static member function 'static bool ncbi::align_format::CAlignFormatUtil::SortHitByPercentIdentityDescendingEx(const ncbi::CRef&, const ncbi::CRef&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:1448:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1448 | auto_ptr seqSetInfo1( CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(*info1)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:1449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1449 | auto_ptr seqSetInfo2( CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(*info2)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CWriteDB; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CWriteDB; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'CWrapperUpper::~CWrapperUpper()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:473:5, + inlined from 'void s_DupSequencesTest(const TIdList&, bool, bool, const std::string&, const std::string&, const std::string&, int)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:548:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void s_DupSequencesTest(const TIdList&, bool, bool, const std::string&, const std::string&, const std::string&, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::AddReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, + inlined from 'void ncbi::CRef::Reset(TObjectType*) [with C = ncbi::objects::CSeq_feat; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:795:40, + inlined from 'void ncbi::objects::CAutogeneratedExtendedCleanup::ExtendedCleanupSeqFeat(ncbi::objects::CSeq_feat&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.cpp:345:19: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 494 | CheckReferenceOverflow(newCount - eCounterStep); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CAutogeneratedExtendedCleanup::ExtendedCleanupSeqFeat(ncbi::objects::CSeq_feat&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:31: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41426,10 +42257,19 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp: In static member function 'static bool ncbi::objects::CCleanup::x_HasShortIntron(const ncbi::objects::CSeq_loc&, size_t)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:2889:68: warning: comparison of integer expressions of different signedness: 'long int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 2889 | if (abs((long int)this_start - (long int)prev_end) < min_len) { + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_utils.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/tblastn_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastn_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41438,10 +42278,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqset/Seq_entry.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_cleanup.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41457,24 +42296,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/gene_qual_normalization.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/gene_qual_normalization.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr m_Starts; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp: In static member function 'static bool ncbi::objects::CCleanup::DecodeXMLMarkChanged(std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:4167:21: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] + 4167 | idx < sizeof(transformations)/sizeof(transformations[0]); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/simple/simple_om.cpp:33: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -41494,8 +42319,9 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/cleanup/cleanup.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_pub.cpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41503,7 +42329,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_pub.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41521,8 +42351,8 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/cleanup/cleanup.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_author.cpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/pssm_engine.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41530,7 +42360,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_author.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41546,46 +42376,22 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_rps_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_rps_options.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41609,33 +42415,28 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.hpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_rps_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/rpstblastn_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpstblastn_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41644,9 +42445,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41662,35 +42463,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ @@ -41700,23 +42478,18 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:31: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41732,33 +42505,47 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp: In static member function 'static ncbi::align_format::CAlignFormatUtil::SSeqAlignSetCalcParams* ncbi::align_format::CAlignFormatUtil::GetSeqAlignCalcParams(const ncbi::objects::CSeq_align&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:4076:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 4076 | auto_ptr seqSetInfo(new SSeqAlignSetCalcParams); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/phiblast_nucl_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_nucl_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp: In static member function 'static ncbi::align_format::CAlignFormatUtil::SSeqAlignSetCalcParams* ncbi::align_format::CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(const ncbi::objects::CSeq_align_set&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:4355:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 4355 | auto_ptr seqSetInfo(new SSeqAlignSetCalcParams); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41768,10 +42555,14 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/aln_printer.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/phiblast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_prot_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41779,8 +42570,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/aln_printer.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41796,15 +42589,39 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, + inlined from 'ncbi::blast::CBlastxOptionsHandle::CBlastxOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastx_options.cpp:52:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastxOptionsHandle::CBlastxOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41820,25 +42637,15 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/gene_qual_normalization.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41867,25 +42674,19 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp: In member function 'ncbi::CSDustMasker::TMaskList* ncbi::CSDustMasker::operator()(const ncbi::objects::CSeqVector&, const TMaskList&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp:103:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | std::auto_ptr< TMaskList > result = duster_( + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/disc_nucl_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/disc_nucl_options.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41907,24 +42708,32 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CWriteDB; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CWriteDB; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'CWrapperUpper::~CWrapperUpper()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:473:5, - inlined from 'void s_DupSequencesTest(const TIdList&, bool, bool, const std::string&, const std::string&, const std::string&, int)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:548:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void s_DupSequencesTest(const TIdList&, bool, bool, const std::string&, const std::string&, const std::string&, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_builder.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41932,7 +42741,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41950,8 +42762,11 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/vectorscreen.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/vectorscreen.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -41959,10 +42774,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/html/html.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/vectorscreen.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -41978,33 +42793,35 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_options.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, + inlined from 'ncbi::blast::CTBlastxOptionsHandle::CTBlastxOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastx_options.cpp:52:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CTBlastxOptionsHandle::CTBlastxOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/aln_printer.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/aln_printer.cpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -42020,16 +42837,30 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp: In function 'typename TMapType::const_iterator ncbi::objects::s_FindInMapAsPrefix(const std::string&, const TMapType&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:1187:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1187 | auto_ptr temp_str; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux.cpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/vectorscreen.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/vectorscreen.cpp:33: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42037,10 +42868,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/html/html.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/vectorscreen.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -42056,41 +42887,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr m_Starts; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:31: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.hpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42098,31 +42912,18 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/util_misc.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -42136,48 +42937,49 @@ 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +pename> class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -42203,76 +43005,41 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_nucl_options.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, + inlined from 'virtual ncbi::blast::CBlastAdvancedProteinOptionsHandle::~CBlastAdvancedProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:56:26, + inlined from 'ncbi::blast::CTBlastnOptionsHandle::CTBlastnOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastn_options.cpp:51:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CTBlastnOptionsHandle::CTBlastnOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_cxx.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -42288,8 +43055,26 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:55: +In member function 'void ncbi::CObject::AddReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, + inlined from 'void ncbi::CRef::x_LockFromPtr() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1197:36, + inlined from 'ncbi::CRef::CRef(TObjectType*) [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:648:26, + inlined from 'void ncbi::blast::SetupQueries_OMF(IBlastQuerySource&, BlastQueryInfo*, BLAST_SequenceBlk**, EBlastProgramType, ncbi::objects::ENa_strand, TSearchMessages&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:637:73: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 494 | CheckReferenceOverflow(newCount - eCounterStep); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void ncbi::blast::SetupQueries_OMF(IBlastQuerySource&, BlastQueryInfo*, BLAST_SequenceBlk**, EBlastProgramType, ncbi::objects::ENa_strand, TSearchMessages&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/vectorscreen.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -42314,18 +43099,77 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:52: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'virtual ncbi::blast::CBlastRPSOptionsHandle::~CBlastRPSOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_rps_options.hpp:53:26, + inlined from 'ncbi::blast::CRPSTBlastnOptionsHandle::CRPSTBlastnOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpstblastn_options.cpp:51:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CRPSTBlastnOptionsHandle::CRPSTBlastnOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp: In member function 'void ncbi::objects::CNewCleanup_imp::x_RemoveFlankingQuotes(std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:5849:22: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 5849 | for( ; first_pos <= last_pos ; ++first_pos, --last_pos ) { + | ~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:5863:19: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 5863 | if( first_pos > last_pos ) { + | ~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:52: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/taxFormat.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42333,36 +43177,22 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/Taxon1_data_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/Taxon1_data.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/taxon1__.hpp:1, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/taxon1.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] +-D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/pssm_engine.cpp -o pssm_engine.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_blast.cpp -o local_blast.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp -o remote_blast.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqvec.cpp -o seqinfosrc_seqvec.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqdb.cpp -o seqinfosrc_seqdb.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_bioseq.cpp -o seqinfosrc_bioseq.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here @@ -42374,115 +43204,48 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp: In member function 'void ncbi::align_format::CSeqAlignFilter::ReadSeqalignSet(const std::string&, ncbi::objects::CSeq_align_set&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:516:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 516 | auto_ptr asn_in(CObjectIStream::Open(fname, eSerial_AsnText)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp: In member function 'void ncbi::align_format::CSeqAlignFilter::WriteSeqalignSet(const std::string&, const ncbi::objects::CSeq_align_set&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:522:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 522 | auto_ptr asn_out(CObjectOStream::Open(fname, eSerial_AsnText)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:50: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp: In static member function 'static bool ncbi::objects::CCleanup::s_AddNumToUserField(ncbi::objects::CUser_field&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:369:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 369 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetStrs().size()) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:375:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 375 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetInts().size()) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:381:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 381 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetReals().size()) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_user_object.cpp:387:53: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CUser_field_Base::TNum' {aka 'int'} and 'std::vector*>::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 387 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetOss().size()) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:93:1: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 93 | auto_ptr CAlignFormatUtil::m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_autoinit.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:58: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_prot_options.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_blast.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42490,34 +43253,13 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -42527,127 +43269,69 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'ncbi::blast::CBlastRPSOptionsHandle::CBlastRPSOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_rps_options.cpp:53:1: + inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, + inlined from 'ncbi::blast::CPHIBlastProtOptionsHandle::CPHIBlastProtOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_prot_options.cpp:51:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastRPSOptionsHandle::CBlastRPSOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::blast::CBlastRPSOptionsHandle::CBlastRPSOptionsHandle(ncbi::CRef)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_rps_options.cpp:56:30: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastRPSOptionsHandle::CBlastRPSOptionsHandle(ncbi::CRef)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CPHIBlastProtOptionsHandle::CPHIBlastProtOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/vectorscreen.hpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_exception.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -mat-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp -o blast_options_handle.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_nucl_options.cpp -o blast_nucl_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/disc_nucl_options.cpp -o disc_nucl_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_prot_options.cpp -o blast_prot_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_options.cpp -o psiblast_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_rps_options.cpp -o blast_rps_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.sIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_local_priv.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_local_priv.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_exception.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_local_priv.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'virtual ncbi::blast::CBlastNucleotideOptionsHandle::~CBlastNucleotideOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:58:26, + inlined from 'ncbi::blast::CPHIBlastNuclOptionsHandle::CPHIBlastNuclOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_nucl_options.cpp:51:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CPHIBlastNuclOptionsHandle::CPHIBlastNuclOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/taxFormat.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -42655,18 +43339,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/Taxon1_data_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/Taxon1_data.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/taxon1__.hpp:1, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/taxon1/taxon1.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -42682,72 +43357,51 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp: In member function 'char* ncbi::blast::CBlastOptionsHandle::GetFilterString() const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:100:35: warning: 'char* ncbi::blast::CBlastOptions::GetFilterString() const' is deprecated [-Wdeprecated-declarations] - 100 | return m_Opts->GetFilterString(); /* NCBI_FAKE_WARNING */ - | ~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here - 178 | NCBI_DEPRECATED char* GetFilterString() const; - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp: In member function 'void ncbi::blast::CBlastOptionsHandle::SetFilterString(const char*, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:106:28: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] - 106 | m_Opts->SetFilterString(f, clear); /* NCBI_FAKE_WARNING */ - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here - 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp: In member function 'ncbi::CSDustMasker::TMaskList* ncbi::CSDustMasker::operator()(const ncbi::objects::CSeqVector&, const TMaskList&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp:103:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | std::auto_ptr< TMaskList > result = duster_( - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:55: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -42760,189 +43414,138 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'virtual ncbi::blast::CBlastNucleotideOptionsHandle::~CBlastNucleotideOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:58:26, - inlined from 'ncbi::blast::CDiscNucleotideOptionsHandle::CDiscNucleotideOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/disc_nucl_options.cpp:52:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CDiscNucleotideOptionsHandle::CDiscNucleotideOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:58: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp: In static member function 'static bool ncbi::align_format::CAlignFormatUtil::SortHitByPercentIdentityDescendingEx(const ncbi::CRef&, const ncbi::CRef&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:1448:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1448 | auto_ptr seqSetInfo1( CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(*info1)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:1449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1449 | auto_ptr seqSetInfo2( CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(*info2)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:64: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp: In member function 'void ncbi::align_format::CSeqAlignFilter::ReadSeqalignSet(const std::string&, ncbi::objects::CSeq_align_set&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:516:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 516 | auto_ptr asn_in(CObjectIStream::Open(fname, eSerial_AsnText)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp: In member function 'void ncbi::align_format::CSeqAlignFilter::WriteSeqalignSet(const std::string&, const ncbi::objects::CSeq_align_set&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp:522:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 522 | auto_ptr asn_out(CObjectOStream::Open(fname, eSerial_AsnText)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp: In member function 'virtual void ncbi::CWinMaskApplication::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 103 | auto_ptr< CArgDescriptions > arg_desc( new CArgDescriptions ); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp: In member function 'virtual int ncbi::CWinMaskApplication::Run()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:252:17: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 252 | auto_ptr< CSeqMasker::TMaskList > mask_info( theMasker( data ) ); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:257:21: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 257 | auto_ptr< CSeqMasker::TMaskList > dust_info( + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:70: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr m_Starts; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:59: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, - inlined from 'virtual ncbi::blast::CBlastAdvancedProteinOptionsHandle::~CBlastAdvancedProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:56:26, - inlined from 'ncbi::blast::CPSIBlastOptionsHandle::CPSIBlastOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_options.cpp:55:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CPSIBlastOptionsHandle::CPSIBlastOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:52: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp: In member function 'virtual void ncbi::align_format::CDisplaySeqalign::x_DisplayRowData(SAlnRowInfo*, ncbi::CNcbiOstream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:1451:69: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] + 1451 | if(m_QueryAnchoredSetIndex != -1 && m_QueryAnchoredSetIndex != rowSetsCount) { + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp: In member function 'void ncbi::align_format::CDisplaySeqalign::DisplaySeqalign(ncbi::CNcbiOstream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:1926:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1926 | auto_ptr out2(CObjectOStream::Open(eSerial_AsnText, out)); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:42: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:52: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -42969,48 +43572,29 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::AddReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, - inlined from 'void ncbi::CRef::Reset(TObjectType*) [with C = ncbi::objects::CSeq_feat; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:795:40, - inlined from 'void ncbi::objects::CAutogeneratedExtendedCleanup::ExtendedCleanupSeqFeat(ncbi::objects::CSeq_feat&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/autogenerated_extended_cleanup.cpp:345:19: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 494 | CheckReferenceOverflow(newCount - eCounterStep); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CAutogeneratedExtendedCleanup::ExtendedCleanupSeqFeat(ncbi::objects::CSeq_feat&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_gen_counts.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:188:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/win_mask_util.hpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 189 | auto_ptr< CMaskReader > m_Reader; // reader used for fasta and bdb formats - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:2104:33: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] + 2104 | } catch (CException e){ + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:64: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_Data; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 181 | auto_ptr m_OptionsBuilder; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:50: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:55: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -43023,80 +43607,53 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp: In member function 'virtual void ncbi::CWinMaskApplication::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:103:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 103 | auto_ptr< CArgDescriptions > arg_desc( new CArgDescriptions ); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:58: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp: In function 'void ncbi::align_format::s_MakeDomainString(int, int, const std::string&, std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:4450:49: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 4450 | for (int i = actual_first_pos, j = 0; i < domain_string.size() - 1 && j < domain_name.size(); i ++, j ++){ + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:4450:81: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] + 4450 | for (int i = actual_first_pos, j = 0; i < domain_string.size() - 1 && j < domain_name.size(); i ++, j ++){ + | ~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp: In static member function 'static ncbi::align_format::CAlignFormatUtil::SSeqAlignSetCalcParams* ncbi::align_format::CAlignFormatUtil::GetSeqAlignCalcParams(const ncbi::objects::CSeq_align&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:4076:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 4076 | auto_ptr seqSetInfo(new SSeqAlignSetCalcParams); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::blast::CBlastNucleotideOptionsHandle::CBlastNucleotideOptionsHandle(ncbi::CRef)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_nucl_options.cpp:56:30: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastNucleotideOptionsHandle::CBlastNucleotideOptionsHandle(ncbi::CRef)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp: In member function 'virtual int ncbi::CWinMaskApplication::Run()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:252:17: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 252 | auto_ptr< CSeqMasker::TMaskList > mask_info( theMasker( data ) ); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:257:21: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 257 | auto_ptr< CSeqMasker::TMaskList > dust_info( - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp: In static member function 'static ncbi::align_format::CAlignFormatUtil::SSeqAlignSetCalcParams* ncbi::align_format::CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(const ncbi::objects::CSeq_align_set&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/align_format_util.cpp:4355:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 4355 | auto_ptr seqSetInfo(new SSeqAlignSetCalcParams); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'ncbi::blast::CBlastNucleotideOptionsHandle::CBlastNucleotideOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_nucl_options.cpp:52:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastNucleotideOptionsHandle::CBlastNucleotideOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'ncbi::blast::CBlastProteinOptionsHandle::CBlastProteinOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_prot_options.cpp:54:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastProteinOptionsHandle::CBlastProteinOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp: In member function 'virtual void ncbi::CDustMaskApplication::Init()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:83:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 83 | auto_ptr< CArgDescriptions > arg_desc( new CArgDescriptions ); @@ -43143,33 +43700,25 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/simple/simple_om.cpp -o simple_om.o +/bin/rm -f libxobjsimple.so .libxobjsimple.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxobjsimple.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC simple_om.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xloader_genbank -lxobjmgr -lseq -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxobjsimple.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxobjsimple.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjsimple.so +/bin/ln -f .xobjsimple.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjsimple.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/tabular.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::blast::CBlastOptionsHandle::CBlastOptionsHandle(EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_options_handle.cpp:65:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastOptionsHandle::CBlastOptionsHandle(EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -43182,94 +43731,74 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp: In static member function 'static bool ncbi::objects::CCleanup::x_HasShortIntron(const ncbi::objects::CSeq_loc&, size_t)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:2889:68: warning: comparison of integer expressions of different signedness: 'long int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 2889 | if (abs((long int)this_start - (long int)prev_end) < min_len) { - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmatch.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmix.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:70: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnseq.hpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr m_Starts; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_bioseq.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_bioseq.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp: In static member function 'static bool ncbi::objects::CCleanup::DecodeXMLMarkChanged(std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup.cpp:4167:21: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] - 4167 | idx < sizeof(transformations)/sizeof(transformations[0]); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/simple/simple_om.cpp -o simple_om.o -/bin/rm -f libxobjsimple.so .libxobjsimple.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxobjsimple.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC simple_om.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lncbi_xloader_genbank -lxobjmgr -lseq -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxobjsimple.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxobjsimple.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjsimple.so -/bin/ln -f .xobjsimple.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjsimple.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp: In function 'typename TMapType::const_iterator ncbi::objects::s_FindInMapAsPrefix(const std::string&, const TMapType&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:1187:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1187 | auto_ptr temp_str; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqinfosrc_seqdb.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqdb.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqdb.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp: In member function 'virtual void ncbi::align_format::CDisplaySeqalign::x_DisplayRowData(SAlnRowInfo*, ncbi::CNcbiOstream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:1451:69: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] - 1451 | if(m_QueryAnchoredSetIndex != -1 && m_QueryAnchoredSetIndex != rowSetsCount) { - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp: In member function 'void ncbi::align_format::CDisplaySeqalign::DisplaySeqalign(ncbi::CNcbiOstream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:1926:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1926 | auto_ptr out2(CObjectOStream::Open(eSerial_AsnText, out)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -pecs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastx_options.cpp -o blastx_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastx_options.cpp -o tblastx_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastn_options.cpp -o tblastn_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpstblastn_options.cpp -o rpstblastn_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_nucl_options.cpp -o phiblast_nucl_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_prot_options.cpp -o phiblast_prot_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:2104:33: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] - 2104 | } catch (CException e){ - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp: In member function 'void ncbi::objects::CNewCleanup_imp::x_RemoveFlankingQuotes(std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:5849:22: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 5849 | for( ; first_pos <= last_pos ; ++first_pos, --last_pos ) { - | ~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:5863:19: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 5863 | if( first_pos > last_pos ) { - | ~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp: In function 'void ncbi::align_format::s_MakeDomainString(int, int, const std::string&, std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:4450:49: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 4450 | for (int i = actual_first_pos, j = 0; i < domain_string.size() - 1 && j < domain_name.size(); i ++, j ++){ - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:4450:81: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} [-Wsign-compare] - 4450 | for (int i = actual_first_pos, j = 0; i < domain_string.size() - 1 && j < domain_name.size(); i ++, j ++){ - | ~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blastx_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastx_options.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqsrc_multiseq.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43278,9 +43807,36 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqvec.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -43299,11 +43855,9 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/tblastx_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastx_options.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_query_factory.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_query_factory.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43311,10 +43865,87 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp -o seqsrc_multiseq.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp -o seqsrc_seqdb.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_query_factory.cpp -o seqsrc_query_factory.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/bl2seq.cpp -o bl2seq.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp -o blast_objmgr_tools.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/repeats_filter_cxx.cpp -o repeats_filter_cxx.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_mtlock.cpp -o blast_mtlock.o +/usr/bin/g++ -std=gnu++14 -c -Wall -W/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp: In function 'BlastSeqSrc* ncbi::blast::MultiSeqBlastSeqSrcInit(TSeqLocVector&, EBlastProgramType, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp:562:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 562 | auto_ptr args + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/bl2seq.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -43330,35 +43961,48 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:55, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:39: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'void ncbi::align_format::CVecscreen::x_MergeSeqalign(ncbi::objects::CSeq_align_set&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/vectorscreen.cpp:423:31: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:212:26: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::align_format::CVecscreen::x_MergeSeqalign(ncbi::objects::CSeq_align_set&)': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/tblastn_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastn_options.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/repeats_filter_cxx.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43366,10 +44010,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/repeats_filter_cxx.cpp:39: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -43388,11 +44030,8 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/phiblast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_prot_options.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43401,9 +44040,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -43419,39 +44058,87 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, - inlined from 'ncbi::blast::CBlastxOptionsHandle::CBlastxOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastx_options.cpp:52:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'void ncbi::align_format::CVecscreen::x_MergeSeqalign(ncbi::objects::CSeq_align_set&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/vectorscreen.cpp:423:31: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastxOptionsHandle::CBlastxOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:55: -In member function 'void ncbi::CObject::AddReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, - inlined from 'void ncbi::CRef::x_LockFromPtr() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1197:36, - inlined from 'ncbi::CRef::CRef(TObjectType*) [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:648:26, - inlined from 'void ncbi::blast::SetupQueries_OMF(IBlastQuerySource&, BlastQueryInfo*, BLAST_SequenceBlk**, EBlastProgramType, ncbi::objects::ENa_strand, TSearchMessages&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup_cxx.cpp:637:73: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 494 | CheckReferenceOverflow(newCount - eCounterStep); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void ncbi::blast::SetupQueries_OMF(IBlastQuerySource&, BlastQueryInfo*, BLAST_SequenceBlk**, EBlastProgramType, ncbi::objects::ENa_strand, TSearchMessages&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::align_format::CVecscreen::x_MergeSeqalign(ncbi::objects::CSeq_align_set&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=windowmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/main.cpp -o main.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=windowmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp -o win_mask_app.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=windowmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp -o win_mask_sdust_masker.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie main.o win_mask_app.o win_mask_sdust_masker.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxalgowinmask -lxalgodustmask -lblast -lcomposition_adjustment -lseqmasks_io -lseqdb -lblastdb -ltables -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o windowmasker +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f windowmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f windowmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/windowmasker +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/main.cpp -o main.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp -o dust_mask_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie main.o dust_mask_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxalgodustmask -lseqmasks_io -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lseqdb -lblastdb -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o dustmasker +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/dustmasker +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:38: In member function 'void ncbi::objects::CSeq_id_Info::RemoveLock() const', @@ -43488,74 +44175,28 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_rps_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/rpstblastn_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpstblastn_options.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, - inlined from 'ncbi::blast::CTBlastxOptionsHandle::CTBlastxOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastx_options.cpp:52:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CSeqDBExpert; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CSeqDBExpert; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'SSeqDB_SeqSrc_Data::~SSeqDB_SeqSrc_Data()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp:53:8, + inlined from 'BlastSeqSrc* ncbi::blast::SeqDbBlastSeqSrcInit(ncbi::CSeqDB*, Int4, ESubjectMaskingType)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp:792:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CTBlastxOptionsHandle::CTBlastxOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'BlastSeqSrc* ncbi::blast::SeqDbBlastSeqSrcInit(ncbi::CSeqDB*, Int4, ESubjectMaskingType)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=windowmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/main.cpp -o main.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=windowmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp -o win_mask_app.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=windowmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_sdust_masker.cpp -o win_mask_sdust_masker.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie main.o win_mask_app.o win_mask_sdust_masker.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxalgowinmask -lxalgodustmask -lblast -lcomposition_adjustment -lseqmasks_io -lseqdb -lblastdb -ltables -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o windowmasker -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f windowmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f windowmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/windowmasker -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/phiblast_nucl_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_nucl_options.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psibl2seq.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psibl2seq.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43563,10 +44204,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:39: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -43582,53 +44221,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/main.cpp -o main.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp -o dust_mask_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie main.o dust_mask_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxalgodustmask -lseqmasks_io -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lseqdb -lblastdb -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o dustmasker -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f dustmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/dustmasker -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, - inlined from 'virtual ncbi::blast::CBlastAdvancedProteinOptionsHandle::~CBlastAdvancedProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:56:26, - inlined from 'ncbi::blast::CTBlastnOptionsHandle::CTBlastnOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/tblastn_options.cpp:51:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CTBlastnOptionsHandle::CTBlastnOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ --D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/pssm_engine.cpp -o pssm_engine.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_blast.cpp -o local_blast.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp -o remote_blast.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqvec.cpp -o seqinfosrc_seqvec.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqdb.cpp -o seqinfosrc_seqdb.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_bioseq.cpp -o seqinfosrc_bioseq.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, - inlined from 'ncbi::blast::CPHIBlastProtOptionsHandle::CPHIBlastProtOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_prot_options.cpp:51:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CPHIBlastProtOptionsHandle::CPHIBlastProtOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimtx.hpp:64, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbireg.hpp:49, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:36: @@ -43645,26 +44237,19 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'virtual ncbi::blast::CBlastRPSOptionsHandle::~CBlastRPSOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_rps_options.hpp:53:26, - inlined from 'ncbi::blast::CRPSTBlastnOptionsHandle::CRPSTBlastnOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpstblastn_options.cpp:51:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CRPSTBlastnOptionsHandle::CRPSTBlastnOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +no-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psibl2seq.cpp -o psibl2seq.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_db_adapter.cpp -o local_db_adapter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast.cpp -o psiblast.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_impl.cpp -o psiblast_impl.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_iteration.cpp -o psiblast_iteration.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psi_pssm_input.cpp -o psi_pssm_input.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=forIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/pssm_engine.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_db_adapter.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_db_adapter.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43672,7 +44257,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:39: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -43688,19 +44274,30 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_set_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_set.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:38: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'virtual ncbi::blast::CBlastNucleotideOptionsHandle::~CBlastNucleotideOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:58:26, - inlined from 'ncbi::blast::CPHIBlastNuclOptionsHandle::CPHIBlastNuclOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/phiblast_nucl_options.cpp:51:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:212:26, + inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = ncbi::blast::TQueryMessages; _Args = {const ncbi::blast::TQueryMessages&}]' at /usr/include/c++/12/bits/stl_construct.h:119:7, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::blast::TQueryMessages*]' at /usr/include/c++/12/bits/stl_uninitialized.h:120:21: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CPHIBlastNuclOptionsHandle::CPHIBlastNuclOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::blast::TQueryMessages*]': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ @@ -43709,9 +44306,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_blast.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43738,8 +44334,10 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_impl.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_impl.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43747,9 +44345,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -43768,9 +44364,12 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqinfosrc_seqdb.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqdb.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_iteration.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43781,7 +44380,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqdb.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_iteration.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -43797,10 +44396,11 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqvec.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psi_pssm_input.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psi_pssm_input.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43808,7 +44408,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psi_pssm_input.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -43824,31 +44426,11 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_blast.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_Data; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 181 | auto_ptr m_OptionsBuilder; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_bioseq.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_bioseq.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/msa_pssm_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43858,7 +44440,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/msa_pssm_input.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -43874,11 +44456,17 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +mat-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp -o msa_pssm_input.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_aux_priv.cpp -o psiblast_aux_priv.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.cpp -o blast_aux_priv.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_advprot_options.cpp -o blast_advprot_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastp_kmer_options.cpp -o blastp_kmer_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/version.cpp -o version.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqsrc_multiseq.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/pssm_engine.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_aux_priv.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43886,10 +44474,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_aux_priv.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_aux_priv.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -43905,68 +44493,81 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp: In function 'BlastSeqSrc* ncbi::blast::MultiSeqBlastSeqSrcInit(TSeqLocVector&, EBlastProgramType, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp:562:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 562 | auto_ptr args - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_query_factory.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_query_factory.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:55, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:39: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:212:26, + inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = ncbi::blast::TQueryMessages; _Args = {const ncbi::blast::TQueryMessages&}]' at /usr/include/c++/12/bits/stl_construct.h:119:7, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::blast::TQueryMessages*]' at /usr/include/c++/12/bits/stl_uninitialized.h:120:21: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::blast::TQueryMessages*]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_reader.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp: In member function 'void ncbi::blast::CPsiBlastInputClustalW::x_ReadAsciiMsa(ncbi::CNcbiIstream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp:125:20: warning: 'void ncbi::CAlnReader::Read(bool, bool, ncbi::objects::ILineErrorListener*)' is deprecated [-Wdeprecated-declarations] + 125 | reader.Read(false, true); + | ~~~~~~~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_reader.hpp:215:10: note: declared here + 215 | void Read( + | ^~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp: In member function 'void ncbi::blast::CPsiBlastInputClustalW::x_ExtractAlignmentData()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp:376:22: warning: comparison of integer expressions of different signedness: 'int' and 'Uint4' {aka 'unsigned int'} [-Wsign-compare] + 376 | while (k < m_Msa->dimensions->query_length && + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_autoinit.hpp:46: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::objects::{anonymous}::SDblinkDeleteInfo::~SDblinkDeleteInfo()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:10749:12, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::objects::{anonymous}::SDblinkDeleteInfo]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::objects::{anonymous}::SDblinkDeleteInfo*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In static member function 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::objects::{anonymous}::SDblinkDeleteInfo*; bool = false]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_setup.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_advprot_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43975,9 +44576,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -43995,9 +44596,10 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/bl2seq.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44005,8 +44607,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -44024,8 +44627,13 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blastp_kmer_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastp_kmer_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44033,8 +44641,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -44050,52 +44660,27 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_multiseq.cpp -o seqsrc_multiseq.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp -o seqsrc_seqdb.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_query_factory.cpp -o seqsrc_query_factory.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/bl2seq.cpp -o bl2seq.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp -o blast_objmgr_tools.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/repeats_filter_cxx.cpp -o repeats_filter_cxx.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_mtlock.cpp -o blast_mtlock.o -/usr/bin/g++ -std=gnu++14 -c -Wall -WIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:55, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:212:26: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, + inlined from 'ncbi::blast::CBlastAdvancedProteinOptionsHandle::CBlastAdvancedProteinOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_advprot_options.cpp:51:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastAdvancedProteinOptionsHandle::CBlastAdvancedProteinOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/repeats_filter_cxx.cpp:44: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44103,8 +44688,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/repeats_filter_cxx.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -44120,112 +44707,35 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_objmgr_tools.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CSeqDBExpert; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CSeqDBExpert; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'SSeqDB_SeqSrc_Data::~SSeqDB_SeqSrc_Data()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp:53:8, - inlined from 'BlastSeqSrc* ncbi::blast::SeqDbBlastSeqSrcInit(ncbi::CSeqDB*, Int4, ESubjectMaskingType)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqsrc_seqdb.cpp:792:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'BlastSeqSrc* ncbi::blast::SeqDbBlastSeqSrcInit(ncbi::CSeqDB*, Int4, ESubjectMaskingType)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -no-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psibl2seq.cpp -o psibl2seq.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_db_adapter.cpp -o local_db_adapter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast.cpp -o psiblast.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_impl.cpp -o psiblast_impl.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_iteration.cpp -o psiblast_iteration.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psi_pssm_input.cpp -o psi_pssm_input.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=forIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_autoinit.hpp:46: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::objects::{anonymous}::SDblinkDeleteInfo::~SDblinkDeleteInfo()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:10749:12, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::objects::{anonymous}::SDblinkDeleteInfo]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::objects::{anonymous}::SDblinkDeleteInfo*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In static member function 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::objects::{anonymous}::SDblinkDeleteInfo*; bool = false]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_set_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_set.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:38: +-D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.cpp -o dust_filter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rps_aux.cpp -o rps_aux.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/search_strategy.cpp -o search_strategy.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/setup_factory.cpp -o setup_factory.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp -o prelim_stage.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp -o traceback_stage.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:212:26, - inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = ncbi::blast::TQueryMessages; _Args = {const ncbi::blast::TQueryMessages&}]' at /usr/include/c++/12/bits/stl_construct.h:119:7, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::blast::TQueryMessages*]' at /usr/include/c++/12/bits/stl_uninitialized.h:120:21: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, + inlined from 'virtual ncbi::blast::CBlastAdvancedProteinOptionsHandle::~CBlastAdvancedProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:56:26, + inlined from 'ncbi::blast::CBlastpKmerOptionsHandle::CBlastpKmerOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastp_kmer_options.cpp:53:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::blast::TQueryMessages*]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastpKmerOptionsHandle::CBlastpKmerOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psibl2seq.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psibl2seq.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/search_strategy.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44233,8 +44743,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/search_strategy.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -44255,8 +44766,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_impl.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_impl.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44280,34 +44791,34 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_db_adapter.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_db_adapter.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:39: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_Data; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 181 | auto_ptr m_OptionsBuilder; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -44316,8 +44827,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/setup_factory.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44344,12 +44854,10 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_iteration.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/traceback_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44357,10 +44865,14 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_id.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_iteration.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp: In member function 'virtual void ncbi::blast::CBlastPrelimSearch::SetNumberOfThreads(size_t)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp:117:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr opts_memento + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -44376,72 +44888,69 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/pssm_engine.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_aux_priv.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp: In member function 'int ncbi::blast::CBlastPrelimSearch::x_LaunchMultiThreadedSearch(ncbi::blast::SInternalData&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp:147:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 147 | auto_ptr opts_memento | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_aux_priv.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_aux_priv.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp: In member function 'ncbi::CRef ncbi::blast::CBlastPrelimSearch::Run()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 216 | auto_ptr opts_memento | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp: In member function 'BlastHSPResults* ncbi::blast::CBlastPrelimSearch::ComputeBlastHSPResults(BlastHSPStream*, Uint4, bool*, std::vector*) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp:329:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 329 | auto_ptr opts_memento + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psi_pssm_input.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psi_pssm_input.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psi_pssm_input.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp: In member function 'ncbi::CRef ncbi::blast::CBlastTracebackSearch::Run()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp:226:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 226 | auto_ptr omp_env; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp: In member function 'BlastHSPResults* ncbi::blast::CBlastTracebackSearch::RunSimple()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp:329:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 329 | auto_ptr omp_env; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/msa_pssm_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/uniform_search.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44449,9 +44958,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/msa_pssm_input.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:39: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -44467,22 +44975,39 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/Pssm_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/Pssm.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:38: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp -o writedb_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/criteria_unit_test.cpp -o criteria_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie writedb_unit_test.o criteria_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lwritedb -lseqdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o writedb_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/writedb_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_search.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -44498,79 +45023,11 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:55, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:39: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:212:26, - inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = ncbi::blast::TQueryMessages; _Args = {const ncbi::blast::TQueryMessages&}]' at /usr/include/c++/12/bits/stl_construct.h:119:7, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::blast::TQueryMessages*]' at /usr/include/c++/12/bits/stl_uninitialized.h:120:21: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::blast::TQueryMessages*]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_reader.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -mat-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp -o msa_pssm_input.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/psiblast_aux_priv.cpp -o psiblast_aux_priv.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.cpp -o blast_aux_priv.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_advprot_options.cpp -o blast_advprot_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastp_kmer_options.cpp -o blastp_kmer_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/version.cpp -o version.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp: In member function 'void ncbi::blast::CPsiBlastInputClustalW::x_ReadAsciiMsa(ncbi::CNcbiIstream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp:125:20: warning: 'void ncbi::CAlnReader::Read(bool, bool, ncbi::objects::ILineErrorListener*)' is deprecated [-Wdeprecated-declarations] - 125 | reader.Read(false, true); - | ~~~~~~~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_reader.hpp:215:10: note: declared here - 215 | void Read( - | ^~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp: In member function 'void ncbi::blast::CPsiBlastInputClustalW::x_ExtractAlignmentData()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/msa_pssm_input.cpp:376:22: warning: comparison of integer expressions of different signedness: 'int' and 'Uint4' {aka 'unsigned int'} [-Wsign-compare] - 376 | while (k < m_Msa->dimensions->query_length && - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp -o writedb_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/unit_test/criteria_unit_test.cpp -o criteria_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie writedb_unit_test.o criteria_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lwritedb -lseqdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o writedb_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f writedb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/writedb_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_advprot_options.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_results.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44578,10 +45035,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -44600,12 +45054,10 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blastp_kmer_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastp_kmer_options.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_search.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_search.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44614,9 +45066,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_diag_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_diag.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/seqalign__.hpp:1, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_search.cpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -44632,42 +45085,23 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ --D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.cpp -o dust_filter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rps_aux.cpp -o rps_aux.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/search_strategy.cpp -o search_strategy.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/setup_factory.cpp -o setup_factory.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp -o prelim_stage.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp -o traceback_stage.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, - inlined from 'ncbi::blast::CBlastAdvancedProteinOptionsHandle::CBlastAdvancedProteinOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_advprot_options.cpp:51:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastAdvancedProteinOptionsHandle::CBlastAdvancedProteinOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, - inlined from 'virtual ncbi::blast::CBlastAdvancedProteinOptionsHandle::~CBlastAdvancedProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:56:26, - inlined from 'ncbi::blast::CBlastpKmerOptionsHandle::CBlastpKmerOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blastp_kmer_options.cpp:53:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::CRef ncbi::blast::BlastBuildSearchResultSet(const std::vector >&, const BlastScoreBlk*, const BlastQueryInfo*, EBlastProgramType, const TSeqAlignVector&, TSearchMessages&, const std::vector >&, const ncbi::TSeqLocInfoVector*, EResultType)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.cpp:359:70: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CBlastpKmerOptionsHandle::CBlastpKmerOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'ncbi::CRef ncbi::blast::BlastBuildSearchResultSet(const std::vector >&, const BlastScoreBlk*, const BlastQueryInfo*, EBlastProgramType, const TSeqAlignVector&, TSearchMessages&, const std::vector >&, const ncbi::TSeqLocInfoVector*, EResultType)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ @@ -44675,8 +45109,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/setup_factory.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/query_data.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44700,22 +45133,60 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_search.hpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +api/uniform_search.cpp -o uniform_search.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp -o local_search.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_results.cpp -o blast_results.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_search.cpp -o remote_search.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/query_data.cpp -o query_data.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgr_query_data.cpp -o objmgr_query_data.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgrfree_query_data.cpp -o objmgrfree_query_data.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.1In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:55, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:39: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:212:26, + inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = ncbi::blast::TQueryMessages; _Args = {const ncbi::blast::TQueryMessages&}]' at /usr/include/c++/12/bits/stl_construct.h:119:7, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::blast::TQueryMessages*]' at /usr/include/c++/12/bits/stl_uninitialized.h:120:21: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::blast::TQueryMessages*]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/objmgr_query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgr_query_data.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgr_query_data.cpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -44731,43 +45202,140 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/traceback_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgr_query_data.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +2.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/bioseq_extract_data_priv.cpp -o bioseq_extract_data_priv.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/effsearchspace_calc.cpp -o effsearchspace_calc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqinfosrc_aux.cpp -o blast_seqinfosrc_aux.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_dbindex.cpp -o blast_dbindex.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp -o split_query_cxx.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_aux_priv.cpp -o split_query_aux_priv.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp:61: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=seqdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp -o seqdb_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqdb_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lseqdb -lwritedb -lxobjutil -lblastdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -o seqdb_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seqdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgrfree_query_data.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44775,7 +45343,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -44791,19 +45362,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/seqalignfilter.cpp -o seqalignfilter.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/taxFormat.cpp -o taxFormat.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/aln_printer.cpp -o aln_printer.o @@ -44815,26 +45373,6 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' cd objtools/align_format/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=align_format_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::CRef ncbi::blast::BlastBuildSearchResultSet(const std::vector >&, const BlastScoreBlk*, const BlastQueryInfo*, EBlastProgramType, const TSeqAlignVector&, TSearchMessages&, const std::vector >&, const ncbi::TSeqLocInfoVector*, EResultType)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_aux_priv.cpp:359:70: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'ncbi::CRef ncbi::blast::BlastBuildSearchResultSet(const std::vector >&, const BlastScoreBlk*, const BlastQueryInfo*, EBlastProgramType, const TSeqAlignVector&, TSearchMessages&, const std::vector >&, const ncbi::TSeqLocInfoVector*, EResultType)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' @@ -44843,85 +45381,15 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp: In member function 'ncbi::CRef ncbi::blast::CBlastTracebackSearch::Run()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp:226:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 226 | auto_ptr omp_env; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test TMPL=align_format_unit_test -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp: In member function 'BlastHSPResults* ncbi::blast::CBlastTracebackSearch::RunSimple()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/traceback_stage.cpp:329:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 329 | auto_ptr omp_env; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/search_strategy.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/search_strategy.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp -o showdefline_unit_test.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp -o showalign_unit_test.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp -o blast_test_util.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp -o vectorscreen_unit_test.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp -o tabularinof_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/Pssm_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/Pssm.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:38: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -45143,21 +45611,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp:48: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -45266,11 +45724,51 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:44: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:60: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -45379,48 +45877,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -45508,37 +45964,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp: In member function 'virtual void ncbi::blast::CBlastPrelimSearch::SetNumberOfThreads(size_t)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp:117:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr opts_memento - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp: In member function 'int ncbi::blast::CBlastPrelimSearch::x_LaunchMultiThreadedSearch(ncbi::blast::SInternalData&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp:147:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 147 | auto_ptr opts_memento - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp: In member function 'ncbi::CRef ncbi::blast::CBlastPrelimSearch::Run()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp:216:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 216 | auto_ptr opts_memento - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp: In member function 'BlastHSPResults* ncbi::blast::CBlastPrelimSearch::ComputeBlastHSPResults(BlastHSPStream*, Uint4, bool*, std::vector*) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/prelim_stage.cpp:329:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 329 | auto_ptr opts_memento - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:60: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -45650,111 +46078,9 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/uniform_search.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:39: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_search.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_results.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_Data; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 181 | auto_ptr m_OptionsBuilder; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_search.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_search.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/effsearchspace_calc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/effsearchspace_calc.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45762,11 +46088,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_diag_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_diag.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/seqalign__.hpp:1, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_search.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/effsearchspace_calc.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -45782,69 +46104,34 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::objects::{anonymous}::SDblinkDeleteInfo::~SDblinkDeleteInfo()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:10749:12, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::objects::{anonymous}::SDblinkDeleteInfo]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::objects::{anonymous}::SDblinkDeleteInfo*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::objects::{anonymous}::SDblinkDeleteInfo*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator, allocator<_T2>&) [with _ForwardIterator = ncbi::objects::{anonymous}::SDblinkDeleteInfo*; _Tp = ncbi::objects::{anonymous}::SDblinkDeleteInfo]' at /usr/include/c++/12/bits/alloc_traits.h:850:15, - inlined from 'std::vector<_Tp, _Alloc>::~vector() [with _Tp = ncbi::objects::{anonymous}::SDblinkDeleteInfo; _Alloc = std::allocator]' at /usr/include/c++/12/bits/stl_vector.h:730:15, - inlined from 'void ncbi::objects::CNewCleanup_imp::x_MoveNpDBlinks(ncbi::objects::CBioseq_set&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:11167:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CNewCleanup_imp::x_MoveNpDBlinks(ncbi::objects::CBioseq_set&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:55, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:39: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:212:26, - inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = ncbi::blast::TQueryMessages; _Args = {const ncbi::blast::TQueryMessages&}]' at /usr/include/c++/12/bits/stl_construct.h:119:7, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::blast::TQueryMessages*]' at /usr/include/c++/12/bits/stl_uninitialized.h:120:21: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::CRef ncbi::blast::s_BuildResultsRemote(CRemoteBlast&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_search.cpp:282:71: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::blast::TQueryMessages*]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'ncbi::CRef ncbi::blast::s_BuildResultsRemote(CRemoteBlast&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -api/uniform_search.cpp -o uniform_search.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp -o local_search.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_results.cpp -o blast_results.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_search.cpp -o remote_search.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/query_data.cpp -o query_data.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgr_query_data.cpp -o objmgr_query_data.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgrfree_query_data.cpp -o objmgrfree_query_data.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.1In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_search.hpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc_aux.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqinfosrc_aux.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45852,10 +46139,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc_aux.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -45871,61 +46155,11 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.hpp:41: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/query_data.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/bioseq_extract_data_priv.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45933,70 +46167,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -46014,12 +46188,11 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_aux_priv.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -46027,31 +46200,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -46069,11 +46221,17 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:46: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -46093,14 +46251,16 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/objmgr_query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgr_query_data.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgr_query_data.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -46116,70 +46276,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/effsearchspace_calc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/effsearchspace_calc.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_aux_priv.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -46203,448 +46305,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgr_query_data.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgrfree_query_data.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -2.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/bioseq_extract_data_priv.cpp -o bioseq_extract_data_priv.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/effsearchspace_calc.cpp -o effsearchspace_calc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqinfosrc_aux.cpp -o blast_seqinfosrc_aux.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_dbindex.cpp -o blast_dbindex.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp -o split_query_cxx.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_aux_priv.cpp -o split_query_aux_priv.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/bioseq_extract_data_priv.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_version.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp:61: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp: In static member function 'static void vectorscreen::CVecscreenTest::VecscreenDisplay()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:93:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 93 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_align_set; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::CRef ncbi::blast::s_BuildResultsRemote(CRemoteBlast&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/remote_search.cpp:282:71: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'ncbi::CRef ncbi::blast::s_BuildResultsRemote(CRemoteBlast&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc_aux.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqinfosrc_aux.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc_aux.hpp:38: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=seqdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/seqdb_reader/seqdb_unit_test.cpp -o seqdb_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqdb_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lseqdb -lwritedb -lxobjutil -lblastdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -o seqdb_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seqdb_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqdb_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -46755,39 +46433,92 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp: In static member function 'static void showdefline::CShowBlastDeflineTest::GetDeflineInfo(TestUtil::CBlastOM::ELocation)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:74:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 74 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:99:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 99 | auto_ptr - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:101:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 101 | auto_ptr - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp: In member function 'void ncbi::blast::CQuerySplitter::x_ComputeQueryContextsForChunks()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:344:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 344 | auto_ptr qdpc; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +ULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.cpp -o split_query_blk.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp -o winmask_filter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/subj_ranges_set.cpp -o subj_ranges_set.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp -o rpsblast_local.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seedtop.cpp -o seedtop.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/cdd_pssm_input.cpp -o cdd_pssm_input.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -46805,17 +46536,10 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -46831,8 +46555,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.hpp:41: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -46841,18 +46581,10 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/effsearchspace_calc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_aux_priv.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/effsearchspace_calc.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -46868,13 +46600,50 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::objects::{anonymous}::SDblinkDeleteInfo::~SDblinkDeleteInfo()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:10749:12, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::objects::{anonymous}::SDblinkDeleteInfo]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::objects::{anonymous}::SDblinkDeleteInfo*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::objects::{anonymous}::SDblinkDeleteInfo*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator, allocator<_T2>&) [with _ForwardIterator = ncbi::objects::{anonymous}::SDblinkDeleteInfo*; _Tp = ncbi::objects::{anonymous}::SDblinkDeleteInfo]' at /usr/include/c++/12/bits/alloc_traits.h:850:15, + inlined from 'std::vector<_Tp, _Alloc>::~vector() [with _Tp = ncbi::objects::{anonymous}::SDblinkDeleteInfo; _Alloc = std::allocator]' at /usr/include/c++/12/bits/stl_vector.h:730:15, + inlined from 'void ncbi::objects::CNewCleanup_imp::x_MoveNpDBlinks(ncbi::objects::CBioseq_set&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp:11167:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CNewCleanup_imp::x_MoveNpDBlinks(ncbi::objects::CBioseq_set&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -46884,13 +46653,20 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_aux_priv.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -46898,15 +46674,35 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showalign_unit_test.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -46923,13 +46719,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -ULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_blk.cpp -o split_query_blk.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/winmask_filter.cpp -o winmask_filter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/subj_ranges_set.cpp -o subj_ranges_set.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp -o rpsblast_local.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seedtop.cpp -o seedtop.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/cdd_pssm_input.cpp -o cdd_pssm_input.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:41: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -46942,45 +46732,19 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp: In member function 'void ncbi::blast::CQuerySplitter::x_ComputeQueryContextsForChunks()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/split_query_cxx.cpp:344:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 344 | auto_ptr qdpc; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat.hpp:367:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 367 | std::auto_ptr< CComponentVersionInfo > fmt_version; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -t+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_author.cpp -o cleanup_author.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_pub.cpp -o cleanup_pub.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp -o newcleanupp.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp -o capitalization_string.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/fix_feature_id.cpp -o fix_feature_id.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_message.cpp -o cleanup_message.o -/bin/rm -f libxcleanup.so .libxcleanup.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxcleanup.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC autogenerated_cleanup.o autogenerated_extended_cleanup.o cleanup.o cleanup_utils.o gene_qual_normalization.o cleanup_user_objectIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -47106,332 +46870,112 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/cdd_pssm_input.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/cdd_pssm_input.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/cdd_pssm_input.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seedtop.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/tabularinof_unit_test.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -.o cleanup_author.o cleanup_pub.o newcleanupp.o capitalization_string.o fix_feature_id.o cleanup_message.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxobjutil -lvalid -lxregexp -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lpcre -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxcleanup.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxcleanup.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxcleanup.so -/bin/ln -f .xcleanup.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xcleanup.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -cd objtools/format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xformat UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/gbloader.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format TMPL=xformat -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp -o accession_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp -o basecount_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp -o comment_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp -o contig_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp -o date_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp -o dbsource_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -WfIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/magicblast_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast_options.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/deltablast_options.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast_options.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_url.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_cookies.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_http_session.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_usage_report.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_usage_report.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_usage_report.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CNcbiRegistry; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CNcbiRegistry; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'void ncbi::blast::CBlastUsageReport::x_CheckBlastUsageEnv()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_usage_report.cpp:221:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::blast::CBlastUsageReport::x_CheckBlastUsageEnv()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:55, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:39: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastQueryVector; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastQueryVector; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = ncbi::CRef*; _Size = long unsigned int; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:272:17: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = ncbi::CRef*; _Size = long unsigned int; _Tp = ncbi::CRef]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'ncbi::blast::CMagicBlastOptionsHandle::CMagicBlastOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast_options.cpp:52:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CMagicBlastOptionsHandle::CMagicBlastOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::blast::CMagicBlastOptionsHandle::CMagicBlastOptionsHandle(ncbi::CRef)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast_options.cpp:56:30: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CMagicBlastOptionsHandle::CMagicBlastOptionsHandle(ncbi::CRef)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, - inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, - inlined from 'virtual ncbi::blast::CBlastAdvancedProteinOptionsHandle::~CBlastAdvancedProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:56:26, - inlined from 'virtual ncbi::blast::CPSIBlastOptionsHandle::~CPSIBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:62:32, - inlined from 'ncbi::blast::CDeltaBlastOptionsHandle::CDeltaBlastOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast_options.cpp:55:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CDeltaBlastOptionsHandle::CDeltaBlastOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -47441,7 +46985,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -47449,10 +46994,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/rpsblast_local.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -47468,54 +47013,41 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp -o aln_printer_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie showdefline_unit_test.o showalign_unit_test.o blast_test_util.o vectorscreen_unit_test.o tabularinof_unit_test.o aln_printer_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxalnmgr -lxcgi -lxhtml -lseqmasks_io -lseqdb -lblast_services -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o align_format_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/align_format_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp: In member function 'virtual void ncbi::objects::CKeywordsItem::x_GatherInfo(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:344:18: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] - 344 | } catch (CException) { - | ^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/deltablast_options.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast_options.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -47523,19 +47055,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -47551,66 +47074,45 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:58: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -47618,7 +47120,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -47634,19 +47136,11 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seedtop.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -47654,7 +47148,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -47670,148 +47164,37 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp: In static member function 'static void vectorscreen::CVecscreenTest::VecscreenDisplay()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/vectorscreen_unit_test.cpp:93:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 93 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp:33: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:63: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp: In static member function 'static void showdefline::CShowBlastDeflineTest::GetDeflineInfo(TestUtil::CBlastOM::ELocation)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:74:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 74 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:99:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 99 | auto_ptr | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp: In function 'void ncbi::objects::s_GetAssemblyInfo(const CBioseqContext&, std::string&, const CUser_object&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:374:16: warning: unused variable 'is_html' [-Wunused-variable] - 374 | const bool is_html = ctx.Config().DoHTML(); - | ^~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/showdefline_unit_test.cpp:101:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 101 | auto_ptr + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:32: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/cdd_pssm_input.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/cdd_pssm_input.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -47819,7 +47202,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/cdd_pssm_input.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -47835,131 +47220,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:58: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:55: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/magicblast_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast_options.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -47967,7 +47234,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/scoremat/PssmWithParameters.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -47983,197 +47253,122 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp: In member function 'bool ncbi::blast::CBlastMasterNode::Processing()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:179:65: note: in expansion of macro 'INFO_POST' - 179 | INFO_POST("Starting Chunk # " << chunk_num << " " << n->GetNodeIdStr()); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 198 | ERR_POST(severity << message); while(0) - | ^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:179:65: note: in expansion of macro 'INFO_POST' - 179 | INFO_POST("Starting Chunk # " << chunk_num << " " << n->GetNodeIdStr()); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:202:49: note: in expansion of macro 'INFO_POST' - 202 | INFO_POST("Chunk #" << chunk_num << " completed in " << s.AsSmartString()); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 198 | ERR_POST(severity << message); while(0) - | ^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:202:49: note: in expansion of macro 'INFO_POST' - 202 | INFO_POST("Chunk #" << chunk_num << " completed in " << s.AsSmartString()); - | ^~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:56: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Date_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Date.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:55, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:39: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CDateItem::CDateItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp:54:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastQueryVector; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastQueryVector; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = ncbi::CRef*; _Size = long unsigned int; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:272:17: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CDateItem::CDateItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = ncbi::CRef*; _Size = long unsigned int; _Tp = ncbi::CRef]': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:59: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:61: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/blast_test_util.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -ormat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp -o defline_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp -o feature_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp -o genome_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp -o ctrl_items.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp -o keywords_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp -o locus_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:65: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqblock/PIR_block_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqblock/PIR_block.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:34: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CKeywordsItem::CKeywordsItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:68:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'virtual ncbi::blast::CBlastProteinOptionsHandle::~CBlastProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_prot_options.hpp:53:26, + inlined from 'virtual ncbi::blast::CBlastAdvancedProteinOptionsHandle::~CBlastAdvancedProteinOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_advprot_options.hpp:56:26, + inlined from 'virtual ncbi::blast::CPSIBlastOptionsHandle::~CPSIBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/psiblast_options.hpp:62:32, + inlined from 'ncbi::blast::CDeltaBlastOptionsHandle::CDeltaBlastOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast_options.cpp:55:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CKeywordsItem::CKeywordsItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CDeltaBlastOptionsHandle::CDeltaBlastOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:90: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48181,7 +47376,11 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:44: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -48197,174 +47396,195 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Na_strand_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Na_strand.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:36: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CBaseCountItem::CBaseCountItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:53:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CBaseCountItem::CBaseCountItem(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Delta_ext_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Delta_ext.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_url.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_cookies.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_http_session.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_usage_report.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_usage_report.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_usage_report.cpp:35: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CContigItem::CContigItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp:56:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CNcbiRegistry; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CNcbiRegistry; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'void ncbi::blast::CBlastUsageReport::x_CheckBlastUsageEnv()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_usage_report.cpp:221:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CContigItem::CContigItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::blast::CBlastUsageReport::x_CheckBlastUsageEnv()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:212:26: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::blast::CBlastOptionsHandle::~CBlastOptionsHandle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:141:26, + inlined from 'ncbi::blast::CMagicBlastOptionsHandle::CMagicBlastOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast_options.cpp:52:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CMagicBlastOptionsHandle::CMagicBlastOptionsHandle(ncbi::blast::CBlastOptionsHandle::EAPILocality)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:91: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:94: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:35: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CAccessionItem::CAccessionItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:59:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastOptions; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::blast::CMagicBlastOptionsHandle::CMagicBlastOptionsHandle(ncbi::CRef)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast_options.cpp:56:30: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CAccessionItem::CAccessionItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::blast::CMagicBlastOptionsHandle::CMagicBlastOptionsHandle(ncbi::CRef)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:108: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:113:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 113 | auto_ptr &feat_ci, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objistr.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:39: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CDeflineItem::CDeflineItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:54:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/typeref.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serial.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CDeflineItem::CDeflineItem(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp: In function 'const std::string& ncbi::objects::s_AaName(int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:2115:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare] - 2115 | if ( idx > 0 && idx < ArraySize(s_TrnaList) ) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Date_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Date.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:35: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp: In member function 'bool ncbi::blast::CBlastMasterNode::Processing()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:179:65: note: in expansion of macro 'INFO_POST' + 179 | INFO_POST("Starting Chunk # " << chunk_num << " " << n->GetNodeIdStr()); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 198 | ERR_POST(severity << message); while(0) + | ^~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:179:65: note: in expansion of macro 'INFO_POST' + 179 | INFO_POST("Starting Chunk # " << chunk_num << " " << n->GetNodeIdStr()); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:202:49: note: in expansion of macro 'INFO_POST' + 202 | INFO_POST("Chunk #" << chunk_num << " completed in " << s.AsSmartString()); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 198 | ERR_POST(severity << message); while(0) + | ^~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp:202:49: note: in expansion of macro 'INFO_POST' + 202 | INFO_POST("Chunk #" << chunk_num << " completed in " << s.AsSmartString()); + | ^~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'virtual ncbi::objects::CCtrlItem::~CCtrlItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/ctrl_items.hpp:50:26, - inlined from 'ncbi::objects::CStartItem::CStartItem(ncbi::objects::CSeq_entry_Handle)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:72:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchMessage; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_types.hpp:212:26: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CStartItem::CStartItem(ncbi::objects::CSeq_entry_Handle)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::TQueryMessages::TQueryMessages(const ncbi::blast::TQueryMessages&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -ast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp -o primary_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp -o reference_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp -o segment_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp -o sequence_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp -o source_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp -o version_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp -o wgs_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:41: +t+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_author.cpp -o cleanup_author.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_pub.cpp -o cleanup_pub.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/newcleanupp.cpp -o newcleanupp.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/capitalization_string.cpp -o capitalization_string.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/fix_feature_id.cpp -o fix_feature_id.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_message.cpp -o cleanup_message.o +/bin/rm -f libxcleanup.so .libxcleanup.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxcleanup.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC autogenerated_cleanup.o autogenerated_extended_cleanup.o cleanup.o cleanup_utils.o gene_qual_normalization.o cleanup_user_objectWdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/unit_test/aln_printer_unit_test.cpp -o aln_printer_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie showdefline_unit_test.o showalign_unit_test.o blast_test_util.o vectorscreen_unit_test.o tabularinof_unit_test.o aln_printer_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxalnmgr -lxcgi -lxhtml -lseqmasks_io -lseqdb -lblast_services -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o align_format_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f align_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/align_format_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' +.o cleanup_author.o cleanup_pub.o newcleanupp.o capitalization_string.o fix_feature_id.o cleanup_message.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxobjutil -lvalid -lxregexp -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lpcre +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxcleanup.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxcleanup.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxcleanup.so +/bin/ln -f .xcleanup.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xcleanup.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +cd objtools/format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xformat UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format TMPL=xformat -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp -o accession_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp -o basecount_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp -o comment_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp -o contig_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp -o date_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp -o dbsource_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wf.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast_options.cpp -o deltablast_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast.cpp -o deltablast.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast_options.cpp -o magicblast_options.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast.cpp -o magicblast.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp -o blast_node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_usage_report.cpp -o blast_usage_report.o +/bin/rm -f libxblast.so .libxblast.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxblast.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC blast_aux.o blast_options_cxx.o blast_options_local_priv.o blast_options_builder.o blast_setup_cxx.o blast_seqalign.o blast_options_handle.o blast_nucl_options.o disc_nucl_options.o blast_prot_options.o psiblast_options.o blast_rps_options.o blastx_options.o tblastx_options.o tblastn_options.o rpstblastn_options.o phiblast_nucl_options.o phiblast_prot_In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48372,7 +47592,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -48388,10 +47608,11 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48399,7 +47620,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -48415,67 +47636,18 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Date_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Date.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CLocusItem::CLocusItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:79:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CLocusItem::CLocusItem(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CDBSourceItem::CDBSourceItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:73:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CDBSourceItem::CDBSourceItem(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48483,7 +47655,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -48499,7 +47671,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ @@ -48512,18 +47683,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp: In member function 'void ncbi::objects::CPrimaryItem::x_GetStrForPrimary(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:220:63: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'ncbi::TSignedSeqPos' {aka 'int'} [-Wsign-compare] - 220 | if ( ctx.IsRefSeq() && last_stop > -1 && (this_start > (last_stop + 1)) ) { - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:221:28: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] - 221 | if (this_start < (15 + last_stop) ) { - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48531,7 +47694,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -48547,21 +47710,34 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:60: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:32: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -48569,10 +47745,8 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:90: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48580,7 +47754,16 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -48596,50 +47779,49 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast_options.cpp -o deltablast_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast.cpp -o deltablast.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast_options.cpp -o magicblast_options.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/magicblast.cpp -o magicblast.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_node.cpp -o blast_node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_usage_report.cpp -o blast_usage_report.o -/bin/rm -f libxblast.so .libxblast.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxblast.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC blast_aux.o blast_options_cxx.o blast_options_local_priv.o blast_options_builder.o blast_setup_cxx.o blast_seqalign.o blast_options_handle.o blast_nucl_options.o disc_nucl_options.o blast_prot_options.o psiblast_options.o blast_rps_options.o blastx_options.o tblastx_options.o tblastn_options.o rpstblastn_options.o phiblast_nucl_options.o phiblast_prot_In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -48647,10 +47829,9 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48658,7 +47839,13 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -48674,19 +47861,25 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:61: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -48702,10 +47895,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -48716,41 +47908,31 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:56: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -48761,19 +47943,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp: In member function 'void ncbi::objects::CSourceItem::x_GatherInfoIdx(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:182:23: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] - 182 | for (int i = 0; i < sizeof (legal_organelles) / sizeof (const char*); i++) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp: In member function 'void ncbi::objects::CSourceItem::x_SetSource(const ncbi::objects::CBioSource&, const ncbi::CSerialObject&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:387:21: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CBioSource_Base::TGenome' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 387 | if ( genome >= s_organelle_prefix_size ) { - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:58: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48781,7 +47954,13 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -48797,44 +47976,21 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:61: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CVersionItem::CVersionItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:52:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CVersionItem::CVersionItem(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -48847,109 +48003,53 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual void ncbi::objects::CSequenceItem::x_GatherInfo(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:83:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::objects::CSequenceItem::x_GatherInfo(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CSequenceItem::CSequenceItem(ncbi::TSeqPos, ncbi::TSeqPos, bool, ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:59:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CSequenceItem::CSequenceItem(ncbi::TSeqPos, ncbi::TSeqPos, bool, ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/formatter.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CSegmentItem::CSegmentItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:50:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CSegmentItem::CSegmentItem(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -NDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp -o tsa_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp -o flat_seqloc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp -o qualifiers.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp -o context.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp -o gather_items.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp -o embl_gather.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CTSAItem::CTSAItem(TTSAType, const std::string&, const std::string&, const ncbi::objects::CUser_object&, ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp:57:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CTSAItem::CTSAItem(TTSAType, const std::string&, const std::string&, const ncbi::objects::CUser_object&, ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Delta_ext_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Delta_ext.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp:35: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CPrimaryItem::CPrimaryItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:64:1: + inlined from 'ncbi::objects::CContigItem::CContigItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/contig_item.cpp:56:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CPrimaryItem::CPrimaryItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CContigItem::CContigItem(ncbi::objects::CBioseqContext&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48957,10 +48057,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Int_fuzz_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Int_fuzz.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -48976,63 +48073,158 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:70: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:91: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ options.o pssm_engine.o local_blast.o remote_blast.o seqinfosrc_seqvec.o seqinfosrc_seqdb.o seqinfosrc_bioseq.o seqsrc_multiseq.o seqsrc_seqdb.o seqsrc_query_factory.o bl2seq.o blast_objmgr_tools.o repeats_filter_cxx.o blast_mtlock.o psibl2seq.o local_db_adapter.o psiblast.o psiblast_impl.o psiblast_iteration.o psi_pssm_input.o msa_pssm_input.o psiblast_aux_priv.o blast_aux_priv.o blast_advprot_options.o blastp_kmer_options.o version.o dust_filter.o rps_aux.o search_strategy.o setup_factory.o prelim_stage.o traceback_stage.o uniform_search.o local_search.o blast_results.o remote_search.o query_data.o objmgr_query_data.o objmgrfree_query_data.o bioseq_extract_data_priv.o effsearchspace_calc.o blast_seqinfosrc_aux.o blast_dbindex.o split_query_cxx.o split_query_aux_priv.o split_query_blk.o winmask_filter.o subj_ranges_set.o rpsblast_local.o seedtop.o cdd_pssm_input.o deltablast_options.o deltablast.o magicblast_options.o magicblast.o blast_node.o blast_usage_report.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lblast -lseqdb -lseqset -lseq -lgeneral -lxser -lxconnect -lsequtil -ltables -lxutil -lxncbi -llmdb -lpthread -lm -lpthread /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib /bin/ln -f libxblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxblast.so /bin/ln -f .xblast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xblast.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +ormat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp -o defline_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp -o feature_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp -o genome_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp -o ctrl_items.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp -o keywords_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp -o locus_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blmake[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' cd algo/blast/blastinput/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastinput UNIX_PROJ="" sources= configurables=configurables.null -cd algo/blast/proteinkmer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=proteinkmer UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd algo/blast/proteinkmer/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=proteinkmer UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:63: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Date_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Date.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp:35: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CWGSItem::CWGSItem(TWGSType, const std::string&, const std::string&, const ncbi::objects::CUser_object&, ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp:57:1: + inlined from 'ncbi::objects::CDateItem::CDateItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/date_item.cpp:54:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CWGSItem::CWGSItem(TWGSType, const std::string&, const std::string&, const ncbi::objects::CUser_object&, ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CDateItem::CDateItem(ncbi::objects::CBioseqContext&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp: In function 'void ncbi::objects::s_GetAssemblyInfo(const CBioseqContext&, std::string&, const CUser_object&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/comment_item.cpp:374:16: warning: unused variable 'is_html' [-Wunused-variable] + 374 | const bool is_html = ctx.Config().DoHTML(); + | ^~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput TMPL=blastinput -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer TMPL=proteinkmer -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp: In member function 'virtual void ncbi::objects::CKeywordsItem::x_GatherInfo(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:344:18: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] + 344 | } catch (CException) { + | ^~~~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' @@ -49049,15 +48241,29 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_args.cpp -o blast_args.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/cmdline_flags.cpp -o cmdline_flags.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp -o blast_input_aux.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wn/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:84: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] - 84 | #pragma ivdep - | -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:91: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] - 91 | #pragma ivdep - | -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:98: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] - 98 | #pragma ivdep - | +/usr/bin/g++ -std=gnu++14 -c -Wall -WnIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:59: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:94: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -49168,6 +48374,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:84: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] + 84 | #pragma ivdep + | +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:91: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] + 91 | #pragma ivdep + | +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:98: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] + 98 | #pragma ivdep + | In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -49278,46 +48493,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:447: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] - 447 | #pragma ivdep - | -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:52: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -49330,16 +48505,20 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:447: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] + 447 | #pragma ivdep + | In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:56: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:48: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:65: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ @@ -49352,6 +48531,8 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:108: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ @@ -49364,81 +48545,104 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp: In member function 'virtual void ncbi::objects::CFlatSeqIdQVal::Format(ncbi::objects::TFlatQuals&, const ncbi::CTempString&, ncbi::objects::CBioseqContext&, ncbi::objects::IFlatQVal::TFlags) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:1108:10: warning: unused variable 'bHtml' [-Wunused-variable] - 1108 | bool bHtml = ctx.Config().DoHTML(); - | ^~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_descr_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seqdesc_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:40: -In member function 'void ncbi::objects::CScopeInfo_Base::RemoveInfoLock()', - inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:605:33, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::objects::CScopeInfo_RefBase::~CScopeInfo_RefBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:611:7, - inlined from 'ncbi::objects::CScopeInfo_Ref::~CScopeInfo_Ref()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:634:7, - inlined from 'ncbi::objects::CBioseq_Handle::~CBioseq_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:90:27, - inlined from 'void ncbi::objects::CSourceItem::x_GatherInfoIdx(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:166:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:570:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 570 | if ( m_LockCounter.Add(-1) <= 0 ) { - | ^~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqblock/GB_block_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqblock/GB_block.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CSourceItem::x_GatherInfoIdx(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:113:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 113 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_MmappedData; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp: In function 'const std::string& ncbi::objects::s_AaName(int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:2115:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare] + 2115 | if ( idx > 0 && idx < ArraySize(s_TrnaList) ) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:58: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp: In member function 'void ncbi::blast::CMinHashFile::GetMinHits(int, int&, std::vector&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:77:25: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 77 | if (hits.size() < numHashes) - | ~~~~~~~~~~~~^~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_scope_src.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CAccessionItem::CAccessionItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/accession_item.cpp:59:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CAccessionItem::CAccessionItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Na_strand_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Na_strand.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:36: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CBaseCountItem::CBaseCountItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_item.cpp:53:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CBaseCountItem::CBaseCountItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ o-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastp_args.cpp -o blastp_args.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastn_args.cpp -o blastn_args.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rmblastn_args.cpp -o rmblastn_args.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastx_args.cpp -o blastx_args.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastn_args.cpp -o tblastn_args.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastx_args.cpp -o tblastx_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:35: +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objistr.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:39: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CDeflineItem::CDeflineItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/defline_item.cpp:54:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/typeref.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serial.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CDeflineItem::CDeflineItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_scope_src.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -49448,38 +48652,35 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_MmappedData; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp: In member function 'void ncbi::blast::CMinHashFile::GetMinHits(int, int&, std::vector&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:77:25: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 77 | if (hits.size() < numHashes) + | ~~~~~~~~~~~~^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, @@ -49510,13 +48711,30 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_args.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rmblastn_args.hpp:21, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rmblastn_args.cpp:20: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49524,9 +48742,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_args.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -49544,9 +48760,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/sequence_item.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49554,7 +48768,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -49570,10 +48784,14 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:48: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastx_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastx_args.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49581,7 +48799,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -49597,34 +48815,91 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objectinfo.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/objecttype.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Date_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Date.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:35: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'void ncbi::objects::CFlatItem::x_SetSkip()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:170:19, - inlined from 'void ncbi::objects::CReferenceItem::x_Init(const ncbi::objects::CCit_gen&, ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:852:22: + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'virtual ncbi::objects::CCtrlItem::~CCtrlItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/ctrl_items.hpp:50:26, + inlined from 'ncbi::objects::CStartItem::CStartItem(ncbi::objects::CSeq_entry_Handle)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ctrl_items.cpp:72:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CReferenceItem::x_Init(const ncbi::objects::CCit_gen&, ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CStartItem::CStartItem(ncbi::objects::CSeq_entry_Handle)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:63: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_scope_src.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -49640,36 +48915,50 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_MmappedData; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmer.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmer.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49677,7 +48966,13 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -49699,8 +48994,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastx_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastx_args.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastp_args.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49724,20 +49019,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmer.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmer.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerindex.cpp:91: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49745,10 +49032,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -49764,19 +49048,48 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_scope_src.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp: In function 'void ncbi::neighbor_query(const std::vector >&, const uint64_t*, std::vector >&, blast::CMinHashFile&, int, int, double, TBlastKmerPrelimScoreVector&, BlastKmerStats&, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:807:38: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] + 807 | if (last_oid == *i) + | ~~~~~~~~~^~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_MmappedData; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -49792,28 +49105,48 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp: In member function 'void ncbi::objects::CPrimaryItem::x_GetStrForPrimary(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:220:63: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'ncbi::TSignedSeqPos' {aka 'int'} [-Wsign-compare] + 220 | if ( ctx.IsRefSeq() && last_stop > -1 && (this_start > (last_stop + 1)) ) { + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:221:28: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] + 221 | if (this_start < (15 + last_stop) ) { + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_scope_src.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqblock/PIR_block_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqblock/PIR_block.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:34: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CReferenceItem; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CReferenceItem; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from 'static void std::__uninitialized_construct_buf_dispatch< >::__ucr(_Pointer, _Pointer, _ForwardIterator) [with _Pointer = ncbi::CRef*; _ForwardIterator = __gnu_cxx::__normal_iterator*, std::vector > >; bool = false]' at /usr/include/c++/12/bits/stl_tempbuf.h:220:21, - inlined from 'void std::__uninitialized_construct_buf(_Pointer, _Pointer, _ForwardIterator) [with _Pointer = ncbi::CRef*; _ForwardIterator = __gnu_cxx::__normal_iterator*, vector > >]' at /usr/include/c++/12/bits/stl_tempbuf.h:254:9, - inlined from 'std::_Temporary_buffer<_ForwardIterator, _Tp>::_Temporary_buffer(_ForwardIterator, size_type) [with _ForwardIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_tempbuf.h:269:42: + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CKeywordsItem::CKeywordsItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/keywords_item.cpp:68:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'std::_Temporary_buffer<_ForwardIterator, _Tp>::_Temporary_buffer(_ForwardIterator, size_type) [with _ForwardIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Tp = ncbi::CRef]': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CKeywordsItem::CKeywordsItem(ncbi::objects::CBioseqContext&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49821,7 +49154,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -49837,24 +49170,18 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_MmappedData; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_fasta_input.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerresults.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -49862,20 +49189,37 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_fasta_input.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -49891,92 +49235,78 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_MmappedData; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CDBSourceItem::CDBSourceItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:73:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CDBSourceItem::CDBSourceItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +ast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp -o primary_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp -o reference_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp -o segment_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp -o sequence_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp -o source_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp -o version_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp -o wgs_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastx_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastx_args.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_MmappedData; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rmblastn_args.hpp:21, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rmblastn_args.cpp:20: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -49992,22 +49322,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/embl_formatter.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp:43: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_fasta_input.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -50015,7 +49333,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_fasta_input.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -50031,18 +49350,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp: In function 'void ncbi::neighbor_query(const std::vector >&, const uint64_t*, std::vector >&, blast::CMinHashFile&, int, int, double, TBlastKmerPrelimScoreVector&, BlastKmerStats&, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerutils.cpp:807:38: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] - 807 | if (last_oid == *i) - | ~~~~~~~~~^~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastp_args.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_args.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -50050,7 +49364,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_args.cpp:39: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -50068,9 +49384,12 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerresults.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastx_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastx_args.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -50078,7 +49397,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -50096,31 +49415,22 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_args.cpp:51: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerindex.cpp:91: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastn_args.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -50128,7 +49438,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -50144,9 +49454,18 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -50156,8 +49475,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastn_args.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastn_args.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -50169,19 +49488,15 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp:52: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -50197,44 +49512,54 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_scope_src.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Date_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Date.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CLocusItem::CLocusItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/locus_item.cpp:79:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CLocusItem::CLocusItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -50250,79 +49575,43 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/flat_file_generator.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_args.cpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/psiblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/psiblast_args.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -50334,26 +49623,18 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmer.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_MmappedData; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -50382,39 +49663,34 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blastn_args.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:60: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_MmappedData; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -50431,67 +49707,18 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:59: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gbseq_formatter.hpp:105:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 105 | auto_ptr m_Out; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerresults.cpp: In member function 'void ncbi::blast::CBlastKmerResults::GetTSL(ncbi::blast::TSeqLocVector&, ncbi::CRef) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerresults.cpp:75:19: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 75 | auto_ptr ssl(new SSeqLoc(*seqloc, *scope)); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -50502,38 +49729,23 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_MmappedData; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp: In member function 'void ncbi::objects::CSourceItem::x_GatherInfoIdx(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:182:23: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] + 182 | for (int i = 0; i < sizeof (legal_organelles) / sizeof (const char*); i++) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -50546,26 +49758,16 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp: In member function 'void ncbi::objects::CSourceItem::x_SetSource(const ncbi::objects::CBioSource&, const ncbi::CSerialObject&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:387:21: warning: comparison of integer expressions of different signedness: 'ncbi::objects::CBioSource_Base::TGenome' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 387 | if ( genome >= s_organelle_prefix_size ) { + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_MmappedData; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; @@ -50575,21 +49777,13 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:56: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerresults.cpp: In member function 'void ncbi::blast::CBlastKmerResults::GetTSL(ncbi::blast::TSeqLocVector&, ncbi::CRef) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerresults.cpp:75:19: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 75 | auto_ptr ssl(new SSeqLoc(*seqloc, *scope)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -50602,25 +49796,17 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:73: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_args.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -50631,57 +49817,49 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:61: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:45: -In member function 'void ncbi::objects::CScopeInfo_Base::RemoveInfoLock()', - inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:605:33, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'ncbi::objects::CScopeInfo_RefBase::~CScopeInfo_RefBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:611:7, - inlined from 'ncbi::objects::CScopeInfo_Ref::~CScopeInfo_Ref()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:634:7, - inlined from 'ncbi::objects::CBioseq_Handle::~CBioseq_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:90:27, - inlined from 'bool ncbi::objects::s_IsVirtualId(const CSeq_id_Handle&, const CBioseq_Handle&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:67:5: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:570:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 570 | if ( m_LockCounter.Add(-1) <= 0 ) { - | ^~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'bool ncbi::objects::s_IsVirtualId(const CSeq_id_Handle&, const CBioseq_Handle&)': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:55, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:38: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CSeqDB; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CSeqDB; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'void ncbi::blast::CBlastKmerBuildIndex::Build(int)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerindex.cpp:485:2: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::blast::CBlastKmerBuildIndex::Build(int)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -50697,97 +49875,80 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmer.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_MmappedData; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:64: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:100: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:101: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_iter.hpp:78:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 78 | auto_ptr m_BioseqIter; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_fasta_input.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_fasta_input.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp: In member function 'void ncbi::objects::CFlatGatherer::x_SubtractFromFocus(TSourceFeatSet&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:2144:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 2144 | auto_ptr copyOfOriginalSeqLocOfFocus( new CSeq_loc() ); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:43: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -50795,7 +49956,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -50811,85 +49972,53 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/psiblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/psiblast_args.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_args.cpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/psiblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objectinfo.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/objecttype.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:45: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CGb_qual; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CGb_qual; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'bool ncbi::objects::CFeatureItem::x_GetGbValue(const std::string&, std::string&) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:6698:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'bool ncbi::objects::CFeatureItem::x_GetGbValue(const std::string&, std::string&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -50902,33 +50031,71 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp:66: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_fasta_input.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/psiblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_input_aux.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -50941,15 +50108,36 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_fasta_input.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/genbank_formatter.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:47: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/formatter.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CSegmentItem::CSegmentItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:50:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CSegmentItem::CSegmentItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:70: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ @@ -50962,122 +50150,92 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_param.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:55, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerindex.hpp:38: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::CSeqDB; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::CSeqDB; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'void ncbi::blast::CBlastKmerBuildIndex::Build(int)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmerindex.cpp:485:2: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'std::pair, double>::~pair()' at /usr/include/c++/12/bits/stl_pair.h:185:12, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = pair, double>]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = std::pair, double>*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = pair, double>*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator, double>*, vector, double> > >; _ForwardIterator = pair, double>*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator, double>*, std::vector, double> > >; _ForwardIterator = std::pair, double>*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator, double>*, vector, double> > >; _ForwardIterator = pair, double>*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator, double>*, vector, double> > >; _ForwardIterator = pair, double>*; _Tp = pair, double>]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = std::pair, double>; _Alloc = std::allocator, double> >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'void s_GetSequencesIntoScope(ncbi::CRef, ncbi::CRef, ncbi::CRef)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:70:66: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::blast::CBlastKmerBuildIndex::Build(int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void s_GetSequencesIntoScope(ncbi::CRef, ncbi::CRef, ncbi::CRef)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp: At global scope: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:971:13: warning: 'bool ncbi::objects::s_NsAreGaps(const CBioseq_Handle&, CBioseqContext&)' defined but not used [-Wunused-function] - 971 | static bool s_NsAreGaps(const CBioseq_Handle& seq, CBioseqContext& ctx) - | ^~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:35: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CUser_field; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CUser_field; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatGoQVal::~CFlatGoQVal()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/qualifiers.hpp:624:26, - inlined from 'void ncbi::objects::CFeatureItem::x_AddFTableExtQuals(const ncbi::objects::CSeq_feat_Base::TExt&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:5472:29: + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CPrimaryItem::CPrimaryItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/primary_item.cpp:64:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CFeatureItem::x_AddFTableExtQuals(const ncbi::objects::CSeq_feat_Base::TExt&)': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CPrimaryItem::CPrimaryItem(ncbi::objects::CBioseqContext&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ --o genbank_gather.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp -o flat_file_generator.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp -o item_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp -o embl_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp -o genbank_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/format_item_ostream.cpp -o format_item_ostream.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_ostream.cpp -o item_ostream.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEB/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp: In member function 'virtual void ncbi::objects::CGenbankFormatter::FormatSequence(const ncbi::objects::CSequenceItem&, ncbi::objects::IFlatTextOStream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:2048:18: warning: catching polymorphic type 'class ncbi::objects::CSeqVectorException' by value [-Wcatch-value=] - 2048 | } catch (CSeqVectorException) { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:2089:26: warning: catching polymorphic type 'class ncbi::objects::CSeqVectorException' by value [-Wcatch-value=] - 2089 | } catch (CSeqVectorException) { - | ^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:35: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CDbtag; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CDbtag; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'virtual void ncbi::objects::CFlatXrefQVal::Format(ncbi::objects::TFlatQuals&, const ncbi::CTempString&, ncbi::objects::CBioseqContext&, ncbi::objects::IFlatQVal::TFlags) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:1397:23: + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CVersionItem::CVersionItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:52:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::objects::CFlatXrefQVal::Format(ncbi::objects::TFlatQuals&, const ncbi::CTempString&, ncbi::objects::CBioseqContext&, ncbi::objects::IFlatQVal::TFlags) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CVersionItem::CVersionItem(ncbi::objects::CBioseqContext&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_id; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'std::pair, double>::~pair()' at /usr/include/c++/12/bits/stl_pair.h:185:12, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = pair, double>]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = std::pair, double>*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = pair, double>*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator, double>*, vector, double> > >; _ForwardIterator = pair, double>*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator, double>*, std::vector, double> > >; _ForwardIterator = std::pair, double>*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator, double>*, vector, double> > >; _ForwardIterator = pair, double>*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator, double>*, vector, double> > >; _ForwardIterator = pair, double>*; _Tp = pair, double>]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = std::pair, double>; _Alloc = std::allocator, double> >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'void s_GetSequencesIntoScope(ncbi::CRef, ncbi::CRef, ncbi::CRef)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp:70:66: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void s_GetSequencesIntoScope(ncbi::CRef, ncbi::CRef, ncbi::CRef)': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_descr_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seqdesc_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:40: +In member function 'void ncbi::objects::CScopeInfo_Base::RemoveInfoLock()', + inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:605:33, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::objects::CScopeInfo_RefBase::~CScopeInfo_RefBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:611:7, + inlined from 'ncbi::objects::CScopeInfo_Ref::~CScopeInfo_Ref()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:634:7, + inlined from 'ncbi::objects::CBioseq_Handle::~CBioseq_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:90:27, + inlined from 'void ncbi::objects::CSourceItem::x_GatherInfoIdx(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:166:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:570:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 570 | if ( m_LockCounter.Add(-1) <= 0 ) { + | ^~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqblock/GB_block_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqblock/GB_block.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/source_item.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CSourceItem::x_GatherInfoIdx(ncbi::objects::CBioseqContext&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/psiblast_args.cpp -o psiblast_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpsblast_args.cpp -o rpsblast_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpstblastn_args.cpp -o rpstblastn_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastn_args.cpp -o igblastn_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp -o igblastp_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/deltablast_args.cpp -o deltablast_args.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FO/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp: At global scope: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:281:15: warning: 'std::string ncbi::objects::s_get_anchor_html(const std::string&, ncbi::TGi)' defined but not used [-Wunused-function] - 281 | static string s_get_anchor_html(const string & sAnchorName, TGi iGi ) - | ^~~~~~~~~~~~~~~~~ -UG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ostream_text_ostream.cpp -o ostream_text_ostream.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp -o origin_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp -o ftable_gather.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp -o ftable_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp -o gbseq_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_config.cpp -o flat_file_config.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -51085,7 +50243,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -51101,14 +50259,89 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +NDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp -o tsa_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp -o flat_seqloc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp -o qualifiers.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp -o context.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp -o gather_items.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp -o embl_gather.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CBioseq; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual void ncbi::objects::CSequenceItem::x_GatherInfo(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:83:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::objects::CSequenceItem::x_GatherInfo(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CWGSItem::CWGSItem(TWGSType, const std::string&, const std::string&, const ncbi::objects::CUser_object&, ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/wgs_item.cpp:57:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CWGSItem::CWGSItem(TWGSType, const std::string&, const std::string&, const ncbi::objects::CUser_object&, ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CSequenceItem::CSequenceItem(ncbi::TSeqPos, ncbi::TSeqPos, bool, ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:59:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CSequenceItem::CSequenceItem(ncbi::TSeqPos, ncbi::TSeqPos, bool, ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/psiblast_args.cpp -o psiblast_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpsblast_args.cpp -o rpsblast_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpstblastn_args.cpp -o rpstblastn_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastn_args.cpp -o igblastn_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp -o igblastp_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/deltablast_args.cpp -o deltablast_args.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FOIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpsblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpsblast_args.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -51116,7 +50349,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Int_fuzz_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Int_fuzz.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -51132,22 +50368,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpstblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpstblastn_args.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:52: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -51155,7 +50379,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -51171,47 +50395,113 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/User_object.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CTSAItem::CTSAItem(TTSAType, const std::string&, const std::string&, const ncbi::objects::CUser_object&, ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/tsa_item.cpp:57:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CTSAItem::CTSAItem(TTSAType, const std::string&, const std::string&, const ncbi::objects::CUser_object&, ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:56: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objectinfo.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/objecttype.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:37: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'void ncbi::objects::CFlatItem::x_SetSkip()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:170:19, + inlined from 'void ncbi::objects::CReferenceItem::x_Init(const ncbi::objects::CCit_gen&, ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/reference_item.cpp:852:22: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CReferenceItem::x_Init(const ncbi::objects::CCit_gen&, ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp: In member function 'virtual void ncbi::objects::CFlatSeqIdQVal::Format(ncbi::objects::TFlatQuals&, const ncbi::CTempString&, ncbi::objects::CBioseqContext&, ncbi::objects::IFlatQVal::TFlags) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:1108:10: warning: unused variable 'bHtml' [-Wunused-variable] + 1108 | bool bHtml = ctx.Config().DoHTML(); + | ^~~~~ +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CReferenceItem; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CReferenceItem; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from 'static void std::__uninitialized_construct_buf_dispatch< >::__ucr(_Pointer, _Pointer, _ForwardIterator) [with _Pointer = ncbi::CRef*; _ForwardIterator = __gnu_cxx::__normal_iterator*, std::vector > >; bool = false]' at /usr/include/c++/12/bits/stl_tempbuf.h:220:21, + inlined from 'void std::__uninitialized_construct_buf(_Pointer, _Pointer, _ForwardIterator) [with _Pointer = ncbi::CRef*; _ForwardIterator = __gnu_cxx::__normal_iterator*, vector > >]' at /usr/include/c++/12/bits/stl_tempbuf.h:254:9, + inlined from 'std::_Temporary_buffer<_ForwardIterator, _Tp>::_Temporary_buffer(_ForwardIterator, size_type) [with _ForwardIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_tempbuf.h:269:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'std::_Temporary_buffer<_ForwardIterator, _Tp>::_Temporary_buffer(_ForwardIterator, size_type) [with _ForwardIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Tp = ncbi::CRef]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/feature_item.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/igblastp_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -51219,7 +50509,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -51235,48 +50525,23 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/igblastp_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:34: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::IFlatTextOStream; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::IFlatTextOStream; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'virtual ncbi::objects::CFormatItemOStream::~CFormatItemOStream()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/format_item_ostream.hpp:49:26, - inlined from 'static std::string ncbi::objects::CFlatFileGenerator::GetSeqFeatText(const ncbi::objects::CMappedFeat&, ncbi::objects::CScope&, const ncbi::objects::CFlatFileConfig&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:1098:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In static member function 'static std::string ncbi::objects::CFlatFileGenerator::GetSeqFeatText(const ncbi::objects::CMappedFeat&, ncbi::objects::CScope&, const ncbi::objects::CFlatFileConfig&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/deltablast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/deltablast_args.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -51284,7 +50549,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -51300,15 +50565,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -51321,12 +50595,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/igblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastn_args.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -51334,7 +50603,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -51350,32 +50619,14 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/magicblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/deltablast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/deltablast_args.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -51399,22 +50650,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/formatter.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gap_item.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CGapItem::CGapItem(ncbi::TSeqPos, ncbi::TSeqPos, ncbi::objects::CBioseqContext&, const std::string&, const std::string&, const TEvidence&, ncbi::TSeqPos)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gap_item.cpp:56:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CGapItem::CGapItem(ncbi::TSeqPos, ncbi::TSeqPos, ncbi::objects::CBioseqContext&, const std::string&, const std::string&, const TEvidence&, ncbi::TSeqPos)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ sr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/pearson.cpp -o pearson.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/kblastapi.cpp -o kblastapi.o /bin/rm -f libproteinkmer.so .libproteinkmer.so.stamp @@ -51423,40 +50676,23 @@ /bin/ln -f libproteinkmer.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libproteinkmer.so /bin/ln -f .proteinkmer.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.proteinkmer.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' cd algo/blast/igblast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=igblast UNIX_PROJ="" sources= configurables=configurables.null cd algo/blast/proteinkmer/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=proteinkmer_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=aalookup_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=aalookup_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=aascan_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdiag_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastengine_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastengine_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastextend_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. @@ -51466,143 +50702,92 @@ cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blasthits_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastoptions_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/ftable_formatter.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp:34: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast TMPL=igblast -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast TMPL=igblast -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test TMPL=proteinkmer_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=aalookup_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastfilter_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastextend_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastextend_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp: In constructor 'ncbi::blast::CIgBlastpAppArgs::CIgBlastpAppArgs()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastp_args.cpp:67:16: warning: unused variable 'kFilterByDefault' [-Wunused-variable] 67 | const bool kFilterByDefault = false; | ^~~~~~~~~~~~~~~~ /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastdiag_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=aalookup_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test TMPL=proteinkmer_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blasthits_unit_test -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=aascan_unit_test -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastfilter_unit_test -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastengine_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastoptions_unit_test -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blasthits_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/kblastp_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/kblastp_args.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpsblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpsblast_args.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -51615,10 +50800,10 @@ 64 | template class auto_ptr; | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastengine_unit_test -w -j12 --jobserver-auth=7,8 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -51629,29 +50814,17 @@ 64 | template class auto_ptr; | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -51766,11 +50939,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -51876,6 +51044,90 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastdiag_unit_test.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -51942,6 +51194,39 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ @@ -51983,7 +51268,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -52212,15 +51497,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastdiag_unit_test.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ @@ -52232,28 +51508,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | p:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/ ^~~~~~~~~~~~~~~~~~~~~~~ + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -52263,17 +51518,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+dc++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBs/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' @@ -52294,29 +51539,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion ofI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of m macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | acro 'NCBI_SBUILDINFO_DEFAULT_IMPL' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' @@ -52327,18 +51550,7 @@ | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | ^~~~~~~~ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ @@ -52349,17 +51561,7 @@ 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) @@ -52369,17 +51571,7 @@ | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prev ^~~~~~~~~~~~~~~ + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -52389,19 +51581,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevenent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -t reproducible builds [-Wdate-time] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] @@ -52413,13 +51593,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/b/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -uild/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' @@ -52427,7 +51601,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -52536,19 +51710,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -52657,17 +51820,40 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/magicblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/feature_item.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_config.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -52675,8 +51861,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/flat_file_config.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_config.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -52699,27 +51884,29 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:63: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -52735,9 +51922,19 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/sequence_item.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -52747,10 +51944,26 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_asn1_input.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpstblastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/rpstblastn_args.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -52758,7 +51971,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -52774,49 +51987,44 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seqdesc_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seqdesc.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::COriginItem::COriginItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp:53:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::COriginItem::COriginItem(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/igblastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/igblastn_args.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -52835,14 +52043,21 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -52851,7 +52066,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/embl_formatter.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -52859,7 +52076,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -52875,30 +52092,46 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:56: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -52914,13 +52147,17 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_asn1_input.cpp:41: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; | ^~~~~~~~ @@ -52928,24 +52165,51 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_gather.cpp:52: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:64: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:43: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -52953,7 +52217,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -52969,57 +52236,109 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 479 | auto_ptr m_Selector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp: In member function 'virtual void ncbi::blast::CMapperMTArgs::ExtractAlgorithmOptions(const ncbi::CArgs&, ncbi::blast::CBlastOptions&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp:205:59: warning: 'unsigned int ncbi::GetCpuCount()' is deprecated [-Wdeprecated-declarations] - 205 | const int kMaxValue = static_cast(GetCpuCount()); - | ~~~~~~~~~~~^~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:479:14: note: declared here - 479 | unsigned int GetCpuCount(void) - | ^~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/cigar_formatter.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sam_formatter.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_gather.cpp:66: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:73: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_asn1_input.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -53027,7 +52346,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -53043,49 +52362,104 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_iter.hpp:78:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 78 | auto_ptr m_BioseqIter; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/flat_file_generator.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_iter.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp -o alignment_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gap_item.cpp -o gap_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp -o genome_project_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sam_formatter.cpp -o sam_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/cigar_formatter.cpp -o cigar_formatter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp -o gather_iter.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp -o html_anchor_item.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -WerIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:100: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:101: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_iter.hpp:78:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 78 | auto_ptr m_BioseqIter; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:45: +In member function 'void ncbi::objects::CScopeInfo_Base::RemoveInfoLock()', + inlined from 'void ncbi::objects::CScopeInfoLocker::Unlock(ncbi::objects::CScopeInfo_Base*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:605:33, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CScopeInfo_Base; Locker = ncbi::objects::CScopeInfoLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'ncbi::objects::CScopeInfo_RefBase::~CScopeInfo_RefBase()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:611:7, + inlined from 'ncbi::objects::CScopeInfo_Ref::~CScopeInfo_Ref()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:634:7, + inlined from 'ncbi::objects::CBioseq_Handle::~CBioseq_Handle()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/bioseq_handle.hpp:90:27, + inlined from 'bool ncbi::objects::s_IsVirtualId(const CSeq_id_Handle&, const CBioseq_Handle&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_seqloc.cpp:67:5: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/tse_handle.hpp:570:13: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 570 | if ( m_LockCounter.Add(-1) <= 0 ) { + | ^~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'bool ncbi::objects::s_IsVirtualId(const CSeq_id_Handle&, const CBioseq_Handle&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -53098,7 +52472,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -53111,6 +52485,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/genbank_formatter.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 322 | auto_ptr m_pOpticalMapPointsDestroyer; | ^~~~~~~~ @@ -53123,33 +52500,70 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp: In member function 'virtual void ncbi::objects::CGenomeProjectItem::x_GatherInfo(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:274:21: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 274 | auto_ptr pStrsDestroyer; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp: In member function 'void ncbi::objects::CFlatGatherer::x_SubtractFromFocus(TSourceFeatSet&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:2144:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 2144 | auto_ptr copyOfOriginalSeqLocOfFocus( new CSeq_loc() ); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:305:21: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 305 | auto_ptr pIntsDestroyer; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ @@ -53162,88 +52576,159 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_asn1_input.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/formatter.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp:35: +-o genbank_gather.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp -o flat_file_generator.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp -o item_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp -o embl_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp -o genbank_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/format_item_ostream.cpp -o format_item_ostream.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_ostream.cpp -o item_ostream.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEB/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp: In member function 'virtual void ncbi::blast::CMapperMTArgs::ExtractAlgorithmOptions(const ncbi::CArgs&, ncbi::blast::CBlastOptions&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp:205:59: warning: 'unsigned int ncbi::GetCpuCount()' is deprecated [-Wdeprecated-declarations] + 205 | const int kMaxValue = static_cast(GetCpuCount()); + | ~~~~~~~~~~~^~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:479:14: note: declared here + 479 | unsigned int GetCpuCount(void) + | ^~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objectinfo.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/objecttype.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/iterator.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:45: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CAlignmentItem::CAlignmentItem(const ncbi::objects::CSeq_align&, ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp:48:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CGb_qual; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CGb_qual; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'bool ncbi::objects::CFeatureItem::x_GetGbValue(const std::string&, std::string&) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:6698:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CAlignmentItem::CAlignmentItem(const ncbi::objects::CSeq_align&, ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'bool ncbi::objects::CFeatureItem::x_GetGbValue(const std::string&, std::string&) const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/kblastp_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/kblastp_args.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:59: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gbseq_formatter.hpp:105:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 105 | auto_ptr m_Out; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gbseq_formatter.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sam_formatter.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/cigar_formatter.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CUser_field; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CUser_field; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatGoQVal::~CFlatGoQVal()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/qualifiers.hpp:624:26, + inlined from 'void ncbi::objects::CFeatureItem::x_AddFTableExtQuals(const ncbi::objects::CSeq_feat_Base::TExt&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/feature_item.cpp:5472:29: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CFeatureItem::x_AddFTableExtQuals(const ncbi::objects::CSeq_feat_Base::TExt&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/igblast/igblast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -53251,10 +52736,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/cigar_formatter.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -53270,15 +52752,11 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gbseq_formatter.hpp:105:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 105 | auto_ptr m_Out; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -53297,33 +52775,19 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/igblast/igblast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -53368,86 +52832,185 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp: In member function 'virtual void ncbi::objects::CGenbankFormatter::FormatSequence(const ncbi::objects::CSequenceItem&, ncbi::objects::IFlatTextOStream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:2048:18: warning: catching polymorphic type 'class ncbi::objects::CSeqVectorException' by value [-Wcatch-value=] + 2048 | } catch (CSeqVectorException) { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:2089:26: warning: catching polymorphic type 'class ncbi::objects::CSeqVectorException' by value [-Wcatch-value=] + 2089 | } catch (CSeqVectorException) { + | ^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp:38: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastdiag_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastdiag_unit_test.cpp -o blastdiag_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastdiag_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o blastdiag_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdiag_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdiag_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdiag_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastsetup_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp: At global scope: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:971:13: warning: 'bool ncbi::objects::s_NsAreGaps(const CBioseq_Handle&, CBioseqContext&)' defined but not used [-Wunused-function] + 971 | static bool s_NsAreGaps(const CBioseq_Handle& seq, CBioseqContext& ctx) + | ^~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastsetup_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/html_anchor_item.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -53463,9 +53026,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp: In member function 'void blastoptions::RemoteOptionsTest::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:73:47: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] + 73 | BOOST_CHECK_NO_THROW(opts.SetFilterString("m L", false)); /* NCBI_FAKE_WARNING */ + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:180:9: note: in definition of macro 'BOOST_CHECK_NO_THROW_IMPL_EX' + 180 | S; \ + | ^ +/usr/include/boost/test/tools/old/interface.hpp:147:45: note: in expansion of macro 'BOOST_CHECK_NO_THROW_IMPL' + 147 | #define BOOST_CHECK_NO_THROW( S ) BOOST_CHECK_NO_THROW_IMPL( S, CHECK ) + | ^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here + 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -53484,20 +53062,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -53516,39 +53084,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -53566,29 +53108,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:37: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CGapIndex; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CGapIndex; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator, allocator<_T2>&) [with _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/alloc_traits.h:850:15, - inlined from 'std::vector<_Tp, _Alloc>::~vector() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:730:15, - inlined from 'ncbi::objects::CFlatGatherer::x_GatherFeaturesOnWholeLocationIdx(const ncbi::objects::CSeq_loc&, ncbi::objects::SAnnotSelector&, ncbi::objects::CBioseqContext&) const::::~()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:3055:67, - inlined from 'void ncbi::objects::CFlatGatherer::x_GatherFeaturesOnWholeLocationIdx(const ncbi::objects::CSeq_loc&, ncbi::objects::SAnnotSelector&, ncbi::objects::CBioseqContext&) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:3054:26: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CFlatGatherer::x_GatherFeaturesOnWholeLocationIdx(const ncbi::objects::CSeq_loc&, ncbi::objects::SAnnotSelector&, ncbi::objects::CBioseqContext&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -53601,109 +53120,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp: In member function 'void blastoptions::RemoteOptionsTest::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:73:47: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] - 73 | BOOST_CHECK_NO_THROW(opts.SetFilterString("m L", false)); /* NCBI_FAKE_WARNING */ - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:180:9: note: in definition of macro 'BOOST_CHECK_NO_THROW_IMPL_EX' - 180 | S; \ - | ^ -/usr/include/boost/test/tools/old/interface.hpp:147:45: note: in expansion of macro 'BOOST_CHECK_NO_THROW_IMPL' - 147 | #define BOOST_CHECK_NO_THROW( S ) BOOST_CHECK_NO_THROW_IMPL( S, CHECK ) - | ^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here - 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmer.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp:56: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 175 | auto_ptr m_MmappedIndex; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_MmappedData; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CGapIndex; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CGapIndex; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator, allocator<_T2>&) [with _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/alloc_traits.h:850:15, - inlined from 'std::vector<_Tp, _Alloc>::~vector() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:730:15, - inlined from 'ncbi::objects::CFlatGatherer::x_GatherFeaturesOnRangeIdx(const ncbi::objects::CSeq_loc&, ncbi::objects::SAnnotSelector&, ncbi::objects::CBioseqContext&) const::::~()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:3528:36, - inlined from 'void ncbi::objects::CFlatGatherer::x_GatherFeaturesOnRangeIdx(const ncbi::objects::CSeq_loc&, ncbi::objects::SAnnotSelector&, ncbi::objects::CBioseqContext&) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:3527:31: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CFlatGatherer::x_GatherFeaturesOnRangeIdx(const ncbi::objects::CSeq_loc&, ncbi::objects::SAnnotSelector&, ncbi::objects::CBioseqContext&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp: In member function 'void blasthits::BlastTargetSequence::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp:116:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 116 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp: In member function 'void ncbi::blast::CIgBlast::x_FindDJAln(ncbi::CRef&, ncbi::CRef&, std::string, bool, ncbi::objects::ENa_strand, int, int, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:997:43: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] - 997 | if ((*it)->GetSeqStart(1) > max_allowed_j_deletion) keep = false; - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -53716,20 +53133,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp: In member function 'bool ncbi::objects::CGather_Iter::x_AddSeqEntryToStack(const ncbi::objects::CSeq_entry_Handle&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp:145:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 145 | auto_ptr seq_iter( new CBioseq_CI(entry, mol_type, CBioseq_CI::eLevel_Mains) ); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ @@ -53749,19 +53159,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp: In member function 'void blastoptions::testCalcLinkHSPCutoffsSmallDB::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:503:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 503 | auto_ptr qsl( @@ -53788,6 +53185,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp: In member function 'void blasthits::BlastTargetSequence::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp:116:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 116 | auto_ptr subj(CTestObjMgr::Instance().CreateSSeqLoc(sid)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp: In member function 'void blastoptions::testHitSavingParamNewSomeInvalidKbp::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:855:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 855 | auto_ptr qsl1( @@ -53885,6 +53289,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp:1346:28: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] 1346 | opts.SetFilterString("T", true);/* NCBI_FAKE_WARNING */ | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ @@ -53925,19 +53336,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here 178 | NCBI_DEPRECATED char* GetFilterString() const; | ^~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastdiag_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastdiag_unit_test.cpp -o blastdiag_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastdiag_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o blastdiag_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdiag_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdiag_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdiag_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastsetup_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp: In member function 'void ncbi::blast::CIgBlast::x_FindDJAln(ncbi::CRef&, ncbi::CRef&, std::string, bool, ncbi::objects::ENa_strand, int, int, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp:997:43: warning: comparison of integer expressions of different signedness: 'ncbi::TSeqPos' {aka 'unsigned int'} and 'int' [-Wsign-compare] + 997 | if ((*it)->GetSeqStart(1) > max_allowed_j_deletion) keep = false; + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp: In member function 'void BlastExtend::testGapAlignment::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:259:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 259 | auto_ptr qsl( @@ -53945,22 +53347,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:262:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 262 | auto_ptr ssl( | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp: In member function 'void BlastExtend::testGreedyAlignment::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:345:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 345 | auto_ptr qsl( @@ -53974,13 +53366,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blastsetup_unit_test -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp: In member function 'void BlastExtend::testGreedyAlignmentWithBadStart::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:457:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 457 | auto_ptr qsl( @@ -53994,174 +53379,55 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp: In member function 'void AalookupTestFixture::GetSeqBlk(std::string)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:99:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 99 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(id, eNa_strand_unknown)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp: In member function 'void blastengine::testBlastpPrelimSearch::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:452:29: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] - 452 | options->SetFilterString("L"); /* NCBI_FAKE_WARNING */ - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here - 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/general/Dbtag.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:37: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CHtmlAnchorItem::CHtmlAnchorItem(ncbi::objects::CBioseqContext&, const std::string&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp:46:1: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CDbtag; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CDbtag; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'virtual void ncbi::objects::CFlatXrefQVal::Format(ncbi::objects::TFlatQuals&, const ncbi::CTempString&, ncbi::objects::CBioseqContext&, ncbi::objects::IFlatQVal::TFlags) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/qualifiers.cpp:1397:23: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CHtmlAnchorItem::CHtmlAnchorItem(ncbi::objects::CBioseqContext&, const std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'virtual void ncbi::objects::CFlatXrefQVal::Format(ncbi::objects::TFlatQuals&, const ncbi::CTempString&, ncbi::objects::CBioseqContext&, ncbi::objects::IFlatQVal::TFlags) const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp: In constructor 'AascanTestFixture::AascanTestFixture()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:105:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 105 | auto_ptr ssl +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp: At global scope: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:281:15: warning: 'std::string ncbi::objects::s_get_anchor_html(const std::string&, ncbi::TGi)' defined but not used [-Wunused-function] + 281 | static string s_get_anchor_html(const string & sAnchorName, TGi iGi ) + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp: In member function 'void blastengine::testBlastpPrelimSearch::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:452:29: warning: 'void ncbi::blast::CBlastOptions::SetFilterString(const char*, bool)' is deprecated [-Wdeprecated-declarations] + 452 | options->SetFilterString("L"); /* NCBI_FAKE_WARNING */ + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_nucl_options.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:180:26: note: declared here + 180 | NCBI_DEPRECATED void SetFilterString(const char* f, bool clear = true); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:140:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 140 | auto_ptr subject_ssl - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -54179,6 +53445,22 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerutils.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmerresults.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/blastkmer.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp:56: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:175:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 175 | auto_ptr m_MmappedIndex; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/proteinkmer/mhfile.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_MmappedData; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In static member function 'static void CBlastFilterTest::x_TestLowerCaseMaskWith(ncbi::objects::ENa_strand, bool)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:189:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 189 | auto_ptr qsl( @@ -54207,24 +53489,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:35: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, - inlined from 'ncbi::objects::CGenomeProjectItem::CGenomeProjectItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:55:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CGenomeProjectItem::CGenomeProjectItem(ncbi::objects::CBioseqContext&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::WindowMasker::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:575:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 575 | auto_ptr @@ -54307,6 +53571,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp: In constructor 'AascanTestFixture::AascanTestFixture()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:105:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 105 | auto_ptr ssl + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::CombineRepeatAndDustFilter::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1178 | auto_ptr qsl( @@ -54314,6 +53585,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp:140:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 140 | auto_ptr subject_ssl + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp: In member function 'void blastfilter::FilterLocNuclBoth::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp:1212:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1212 | auto_ptr qsl( @@ -54375,6 +53652,248 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +UG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ostream_text_ostream.cpp -o ostream_text_ostream.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp -o origin_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp -o ftable_gather.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp -o ftable_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp -o gbseq_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_config.cpp -o flat_file_config.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp: In member function 'void AalookupTestFixture::GetSeqBlk(std::string)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp:99:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 99 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(id, eNa_strand_unknown)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/util_misc.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/ftable_formatter.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/feature_item.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:34: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::IFlatTextOStream; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::IFlatTextOStream; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'virtual ncbi::objects::CFormatItemOStream::~CFormatItemOStream()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/format_item_ostream.hpp:49:26, + inlined from 'static std::string ncbi::objects::CFlatFileGenerator::GetSeqFeatText(const ncbi::objects::CMappedFeat&, ncbi::objects::CScope&, const ncbi::objects::CFlatFileConfig&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_generator.cpp:1098:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In static member function 'static std::string ncbi::objects::CFlatFileGenerator::GetSeqFeatText(const ncbi::objects::CMappedFeat&, ncbi::objects::CScope&, const ncbi::objects::CFlatFileConfig&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_items.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp:33: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ RTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/magicblast_args.cpp -o magicblast_args.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/kblastp_args.cpp -o kblastp_args.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/blast_asn1_input.cpp -o blast_asn1_input.o @@ -54394,10 +53913,10 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gene_finder.cpp:38: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/feature_item.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_config.cpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -54405,9 +53924,8 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/flat_file_config.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_file_config.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -54424,7 +53942,32 @@ 64 | template class auto_ptr; | ^~~~~~~~ /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=gapinfo_unit_test -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_formatter.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gapinfo_unit_test.cpp:34: @@ -54536,29 +54079,98 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/formatter.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gap_item.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CGapItem::CGapItem(ncbi::TSeqPos, ncbi::TSeqPos, ncbi::objects::CBioseqContext&, const std::string&, const std::string&, const TEvidence&, ncbi::TSeqPos)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gap_item.cpp:56:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CGapItem::CGapItem(ncbi::TSeqPos, ncbi::TSeqPos, ncbi::objects::CBioseqContext&, const std::string&, const std::string&, const TEvidence&, ncbi::TSeqPos)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_loc; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_loc; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'ncbi::blast::SSeqLoc::~SSeqLoc()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:47:8, + inlined from 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = ncbi::blast::SSeqLoc]' at /usr/include/c++/12/bits/unique_ptr.h:95:2: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = ncbi::blast::SSeqLoc]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seqdesc_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seqdesc.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::COriginItem::COriginItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/origin_item.cpp:53:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::COriginItem::COriginItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbifile.hpp:53, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/util/util_misc.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:34: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -54574,62 +54186,45 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 322 | auto_ptr m_pOpticalMapPointsDestroyer; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 479 | auto_ptr m_Selector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:113:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 113 | auto_ptr &feat_ci, +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gene_finder.cpp:78:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 78 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:39: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp:33: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -54645,53 +54240,132 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_iter.hpp:78:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 78 | auto_ptr m_BioseqIter; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gather_iter.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastextend_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp -o blastextend_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastextend_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastextend_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastextend_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastextend_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastextend_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gencode_singleton_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/dust_filter.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/formatter.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp:35: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::objects::CSeq_loc; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, - inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::objects::CSeq_loc; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, - inlined from 'ncbi::blast::SSeqLoc::~SSeqLoc()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:47:8, - inlined from 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = ncbi::blast::SSeqLoc]' at /usr/include/c++/12/bits/unique_ptr.h:95:2: + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CAlignmentItem::CAlignmentItem(const ncbi::objects::CSeq_align&, ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp:48:1: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void std::default_delete<_Tp>::operator()(_Tp*) const [with _Tp = ncbi::blast::SSeqLoc]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CAlignmentItem::CAlignmentItem(const ncbi::objects::CSeq_align&, ncbi::objects::CBioseqContext&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ +blast+-2.12.0+ds/c++/src/objtools/format/alignment_item.cpp -o alignment_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gap_item.cpp -o gap_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp -o genome_project_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sam_formatter.cpp -o sam_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/cigar_formatter.cpp -o cigar_formatter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp -o gather_iter.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp -o html_anchor_item.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Wer/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=gencode_singleton_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=aalookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp -o aalookup_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie aalookup_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o aalookup_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f aalookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f aalookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/aalookup_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=aascan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp -o aascan_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie aascan_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o aascan_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f aascan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f aascan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/aascan_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=gencode_singleton_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=hspfilter_besthit_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=gencode_singleton_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gencode_singleton_unit_test.cpp:39: @@ -54803,55 +54477,54 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=gapinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gapinfo_unit_test.cpp -o gapinfo_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie gapinfo_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxconnect -lxncbi -llmdb -lpthread -lm -lpthread -o gapinfo_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gapinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f gapinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gapinfo_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=hspfilter_besthit_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/dust_filter.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:159:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 159 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq ); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/dustmask/symdust.hpp:168:14: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | std::auto_ptr< TMaskList > operator()( const sequence_type & seq, - | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=hspfilter_besthit_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp: In member function 'virtual void ncbi::objects::CGenomeProjectItem::x_GatherInfo(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:274:21: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 274 | auto_ptr pStrsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:305:21: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 305 | auto_ptr pIntsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/item_formatter.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gbseq_formatter.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gbseq_formatter.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/gbseq_formatter.hpp:105:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 105 | auto_ptr m_Out; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=hspfilter_besthit_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=aascan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp -o aascan_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie aascan_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o aascan_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f aascan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f aascan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/aascan_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_besthit_unit_test.cpp:37: @@ -54963,6 +54636,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=aalookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aalookup_unit_test.cpp -o aalookup_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie aalookup_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o aalookup_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f aalookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f aalookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/aalookup_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=hspfilter_culling_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -54973,6 +54652,152 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=hspfilter_culling_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/cigar_formatter.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sam_formatter.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_culling_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::SetupSubjectsProt::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:485:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 485 | auto_ptr sseqloc(CTestObjMgr::Instance().CreateSSeqLoc(id)); @@ -54986,7 +54811,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=hspfilter_culling_unit_test -w -j12 --jobserver-auth=7,8 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::SetupSubjectsProtRange::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:516:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 516 | auto_ptr sseqloc( @@ -55000,6 +54824,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/mapped_feat.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/feature.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/html_anchor_item.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp:34: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::SetupSubjectsNuclPlusStrandFiltered::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:549:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 549 | auto_ptr sl(m_Om->CreateSSeqLoc(id, kRange, kStrand)); @@ -55007,6 +54849,18 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::SetupSubjectsNuclMinusStrandFiltered::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:576:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 576 | auto_ptr sl(m_Om->CreateSSeqLoc(id, kRange, kStrand)); @@ -55060,7 +54914,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::GetSequenceNCBI4NA_NoSentinels::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:758:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 758 | auto_ptr sl( @@ -55086,6 +54939,29 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:811:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 811 | auto_ptr sl( | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:37: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CGapIndex; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CGapIndex; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator, allocator<_T2>&) [with _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/alloc_traits.h:850:15, + inlined from 'std::vector<_Tp, _Alloc>::~vector() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:730:15, + inlined from 'ncbi::objects::CFlatGatherer::x_GatherFeaturesOnWholeLocationIdx(const ncbi::objects::CSeq_loc&, ncbi::objects::SAnnotSelector&, ncbi::objects::CBioseqContext&) const::::~()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:3055:67, + inlined from 'void ncbi::objects::CFlatGatherer::x_GatherFeaturesOnWholeLocationIdx(const ncbi::objects::CSeq_loc&, ncbi::objects::SAnnotSelector&, ncbi::objects::CBioseqContext&) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:3054:26: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CFlatGatherer::x_GatherFeaturesOnWholeLocationIdx(const ncbi::objects::CSeq_loc&, ncbi::objects::SAnnotSelector&, ncbi::objects::CBioseqContext&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -55115,6 +54991,28 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp: In member function 'void BlastSetup::testMitochondrialGeneticCode::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:1046:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1046 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id, @@ -55169,12 +55067,86 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastengine_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp -o blastengine_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastengine_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastengine_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastengine_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastengine_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastengine_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=hspstream_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=hspstream_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/cigar_formatter.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Dense_seg.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/cigar_formatter.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_culling_unit_test.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CGapIndex; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CGapIndex; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator, allocator<_T2>&) [with _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/alloc_traits.h:850:15, + inlined from 'std::vector<_Tp, _Alloc>::~vector() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:730:15, + inlined from 'ncbi::objects::CFlatGatherer::x_GatherFeaturesOnRangeIdx(const ncbi::objects::CSeq_loc&, ncbi::objects::SAnnotSelector&, ncbi::objects::CBioseqContext&) const::::~()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:3528:36, + inlined from 'void ncbi::objects::CFlatGatherer::x_GatherFeaturesOnRangeIdx(const ncbi::objects::CSeq_loc&, ncbi::objects::SAnnotSelector&, ncbi::objects::CBioseqContext&) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:3527:31: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CFlatGatherer::x_GatherFeaturesOnRangeIdx(const ncbi::objects::CSeq_loc&, ncbi::objects::SAnnotSelector&, ncbi::objects::CBioseqContext&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -55280,27 +55252,82 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sam_formatter.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastextend_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp -o blastextend_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastextend_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastextend_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastextend_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastextend_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastextend_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=gapinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gapinfo_unit_test.cpp -o gapinfo_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie gapinfo_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxconnect -lxncbi -llmdb -lpthread -lm -lpthread -o gapinfo_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gapinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f gapinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gapinfo_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=hspstream_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=linkhsp_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=hspstream_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=linkhsp_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_unit_test.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -55409,27 +55436,73 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastengine_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastengine_unit_test.cpp -o blastengine_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastengine_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastengine_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastengine_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastengine_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastengine_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=linkhsp_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp: In member function 'bool ncbi::objects::CGather_Iter::x_AddSeqEntryToStack(const ncbi::objects::CSeq_entry_Handle&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_iter.cpp:145:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 145 | auto_ptr seq_iter( new CBioseq_CI(entry, mol_type, CBioseq_CI::eLevel_Mains) ); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp -o igblast.o +/bin/rm -f libigblast.so .libigblast.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libigblast.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC igblast.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxconnect -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libigblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libigblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libigblast.so +/bin/ln -f .igblast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.igblast.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=msa2pssm_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:37: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CHtmlAnchorItem::CHtmlAnchorItem(ncbi::objects::CBioseqContext&, const std::string&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/html_anchor_item.cpp:46:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=linkhsp_unit_test -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CHtmlAnchorItem::CHtmlAnchorItem(ncbi::objects::CBioseqContext&, const std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=msa2pssm_unit_test -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -55540,6 +55613,35 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gene_finder.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:43: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gencode_singleton_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -55572,138 +55674,7 @@ /bin/ln -f blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blasthits_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=msa2pssm_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=msa2pssm_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/igblast/igblast.cpp -o igblast.o -/bin/rm -f libigblast.so .libigblast.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libigblast.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC igblast.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxconnect -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -llmdb -lpthread -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libigblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libigblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libigblast.so -/bin/ln -f .igblast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.igblast.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=ntlookup_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -55825,6 +55796,100 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Bioseq.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:35: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CConstRef::Reset() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1444:38, + inlined from 'ncbi::CConstRef::~CConstRef() [with C = ncbi::CSerialObject; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1361:18, + inlined from 'virtual ncbi::objects::CFlatItem::~CFlatItem()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/item_base.hpp:143:1, + inlined from 'ncbi::objects::CGenomeProjectItem::CGenomeProjectItem(ncbi::objects::CBioseqContext&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_project_item.cpp:55:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In constructor 'ncbi::objects::CGenomeProjectItem::CGenomeProjectItem(ncbi::objects::CBioseqContext&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_unit_test.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:322:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 322 | auto_ptr m_pOpticalMapPointsDestroyer; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/context.hpp:479:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 479 | auto_ptr m_Selector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/items/gene_finder.hpp:113:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 113 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gene_finder.cpp:78:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 78 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; @@ -55838,13 +55903,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=proteinkmer_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp -o proteinkmer_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie proteinkmer_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o proteinkmer_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f proteinkmer_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f proteinkmer_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/proteinkmer_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspfilter_culling_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_culling_unit_test.cpp -o hspfilter_culling_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie hspfilter_culling_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o hspfilter_culling_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f hspfilter_culling_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f hspfilter_culling_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/hspfilter_culling_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=ntscan_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. @@ -55967,11 +56032,16 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=proteinkmer_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test.cpp -o proteinkmer_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie proteinkmer_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o proteinkmer_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f proteinkmer_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f proteinkmer_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/proteinkmer_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_unit_test.cpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -55979,29 +56049,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -56017,13 +56065,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspfilter_culling_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_culling_unit_test.cpp -o hspfilter_culling_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie hspfilter_culling_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o hspfilter_culling_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f hspfilter_culling_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f hspfilter_culling_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/hspfilter_culling_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=optionshandle_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. @@ -56033,31 +56075,10 @@ /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f hspfilter_besthit_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f hspfilter_besthit_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/hspfilter_besthit_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=phiblast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -ror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/inst_info_map.cpp -o inst_info_map.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gene_finder.cpp -o gene_finder.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_qual_slots.cpp -o flat_qual_slots.o -/bin/rm -f libxformat.so .libxformat.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxformat.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC accession_item.o basecount_item.o comment_item.o contig_item.o date_item.o dbsource_item.o defline_item.o feature_item.o genome_item.o ctrl_items.o keywords_item.o locus_item.o primary_item.o reference_item.o segment_item.o sequence_item.o source_item.o version_item.o wgs_item.o tsa_item.o flat_seqloc.o qualifiers.o context.o gather_items.o embl_gather.o genbank_gather.o flat_file_generator.o item_formatter.o embl_formatter.o genbank_formatter.o format_item_ostream.o item_ostream.o ostream_text_ostream.o origin_item.o ftable_gather.o ftable_formatter.o gbseq_formatter.o flat_file_config.o alignment_item.o gap_item.o genome_project_item.o sam_formatter.o cigar_formatter.o gather_iter.o html_anchor_item.o inst_info_map.o gene_finder.o flat_qual_slots.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxcleanup -lvalid -lgbseq -lmlacli -lmla -lmedlars -lpubmed -lsubmit -lxalnmgr -lxobjutil -ltaxon3 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxformat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxformat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxformat.so -/bin/ln -f .xformat.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xformat.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=optionshandle_unit_test -w -j12 --jobserver-auth=7,8 all -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=prelimsearch_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -56070,124 +56091,13 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=optionshandle_unit_test -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=phiblast_unit_test -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=prelimsearch_unit_test -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/optionshandle_unit_test.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/phiblast_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/optionshandle_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -56298,7 +56208,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/phiblast_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -56407,54 +56317,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastoptions_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp -o blastoptions_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastoptions_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastoptions_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastoptions_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastoptions_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastoptions_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psibl2seq_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -56470,55 +56338,34 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=psibl2seq_unit_test -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp: In member function 'void LinkHspTestFixture::setupLinkHspInputTblastn()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:235:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 235 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:240:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 240 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp: In member function 'void LinkHspTestFixture::setupLinkHspInputBlastn()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:391:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 391 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(seqid, range)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp: In member function 'AllCutoffScores* LinkHspTestFixture::setupCutoffScores(bool, Int8, Uint4, Uint4, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:433:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 433 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(*qid, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp: In member function 'void msa2pssm::QueryNotFoundInMsa::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp:55:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 55 | auto_ptr pssm_input; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:438:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 438 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(*qid)); - | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastoptions_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastoptions_unit_test.cpp -o blastoptions_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastoptions_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastoptions_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastoptions_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastoptions_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastoptions_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=gencode_singleton_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gencode_singleton_unit_test.cpp -o gencode_singleton_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie gencode_singleton_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o gencode_singleton_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gencode_singleton_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f gencode_singleton_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gencode_singleton_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psiblast_iteration_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=prelimsearch_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -56527,9 +56374,11 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=prelimsearch_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -56638,11 +56487,48 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=psiblast_iteration_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=gencode_singleton_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/gencode_singleton_unit_test.cpp -o gencode_singleton_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie gencode_singleton_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o gencode_singleton_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f gencode_singleton_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f gencode_singleton_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/gencode_singleton_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psibl2seq_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=psibl2seq_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_iteration_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -56751,30 +56637,48 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp: In member function 'void msa2pssm::QueryNotFoundInMsa::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp:55:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 55 | auto_ptr pssm_input; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp: In member function 'void LinkHspTestFixture::setupLinkHspInputTblastn()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:235:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 235 | auto_ptr qsl( + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:240:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 240 | auto_ptr qsl( + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp: In member function 'void LinkHspTestFixture::setupLinkHspInputBlastn()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:391:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 391 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(seqid, range)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp: In member function 'AllCutoffScores* LinkHspTestFixture::setupCutoffScores(bool, Int8, Uint4, Uint4, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:433:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 433 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(*qid, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp:438:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 438 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(*qid)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -56792,27 +56696,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, @@ -56835,17 +56718,10 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/phiblast_unit_test.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -56861,21 +56737,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_unit_test.cpp -o hspstream_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_test_util.cpp -o hspstream_test_util.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie hspstream_unit_test.o hspstream_test_util.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o hspstream_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/hspstream_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=pssmcreate_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/optionshandle_unit_test.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/phiblast_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -56900,6 +56765,15 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_unit_test.cpp -o hspstream_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspstream_test_util.cpp -o hspstream_test_util.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie hspstream_unit_test.o hspstream_test_util.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o hspstream_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f hspstream_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/hspstream_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psiblast_iteration_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -56908,41 +56782,11 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=pssmcreate_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=psiblast_iteration_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssm_test_util.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_iteration_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -57051,9 +56895,100 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options_handle.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/optionshandle_unit_test.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=msa2pssm_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp -o msa2pssm_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie msa2pssm_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o msa2pssm_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f msa2pssm_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f msa2pssm_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/msa2pssm_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=pssmcreate_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=pssmcreate_unit_test -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/uniform_search.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssm_test_util.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -57164,7 +57099,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -57273,64 +57208,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=msa2pssm_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/msa2pssm_unit_test.cpp -o msa2pssm_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie msa2pssm_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o msa2pssm_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f msa2pssm_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f msa2pssm_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/msa2pssm_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=pssmenginefreqratios_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=pssmenginefreqratios_unit_test -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp: In member function 'void TestFixture::SetUpQuery(Uint4, ncbi::objects::ENa_strand)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:127:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 127 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(id,strand)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp: In member function 'void TestFixture::SetUpSubject(Uint4)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:197:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 197 | auto_ptr - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -57439,6 +57319,20 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp: In member function 'void TestFixture::SetUpQuery(Uint4, ncbi::objects::ENa_strand)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:127:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 127 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(id,strand)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp: In member function 'void TestFixture::SetUpSubject(Uint4)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:197:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 197 | auto_ptr + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -57470,6 +57364,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_unit_test.cpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp: In member function 'void prelimsearch::SplitNucleotideQuery::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:144:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 144 | auto_ptr q_ssl(CTestObjMgr::Instance().CreateSSeqLoc(q_id, kRange, kStrand)); @@ -57491,14 +57403,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_unit_test.cpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=linkhsp_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/linkhsp_unit_test.cpp -o linkhsp_unit_test.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie linkhsp_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o linkhsp_unit_test @@ -57506,7 +57410,7 @@ /bin/ln -f linkhsp_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/linkhsp_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=querydata_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=pssmenginefreqratios_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -57515,11 +57419,11 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=querydata_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=pssmenginefreqratios_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -57628,6 +57532,35 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/pssm_engine.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:58: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, @@ -57672,22 +57605,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=psiblast_iteration_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_iteration_unit_test.cpp -o psiblast_iteration_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie psiblast_iteration_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o psiblast_iteration_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psiblast_iteration_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f psiblast_iteration_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psiblast_iteration_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=queryinfo_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -57713,11 +57630,84 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=queryinfo_unit_test -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:79: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=phiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/phiblast_unit_test.cpp -o phiblast_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie phiblast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o phiblast_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f phiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f phiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/phiblast_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=querydata_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:67: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=querydata_unit_test -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestConvertSeqalignToCdMsa::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:511:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 511 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*qid)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:514:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 514 | auto_ptr in + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -57826,45 +57816,75 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/pssm_engine.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:58: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +ror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/inst_info_map.cpp -o inst_info_map.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gene_finder.cpp -o gene_finder.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/flat_qual_slots.cpp -o flat_qual_slots.o +/bin/rm -f libxformat.so .libxformat.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxformat.so -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIC accession_item.o basecount_item.o comment_item.o contig_item.o date_item.o dbsource_item.o defline_item.o feature_item.o genome_item.o ctrl_items.o keywords_item.o locus_item.o primary_item.o reference_item.o segment_item.o sequence_item.o source_item.o version_item.o wgs_item.o tsa_item.o flat_seqloc.o qualifiers.o context.o gather_items.o embl_gather.o genbank_gather.o flat_file_generator.o item_formatter.o embl_formatter.o genbank_formatter.o format_item_ostream.o item_ostream.o ostream_text_ostream.o origin_item.o ftable_gather.o ftable_formatter.o gbseq_formatter.o flat_file_config.o alignment_item.o gap_item.o genome_project_item.o sam_formatter.o cigar_formatter.o gather_iter.o html_anchor_item.o inst_info_map.o gene_finder.o flat_qual_slots.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxcleanup -lvalid -lgbseq -lmlacli -lmla -lmedlars -lpubmed -lsubmit -lxalnmgr -lxobjutil -ltaxon3 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxformat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxformat.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxformat.so +/bin/ln -f .xformat.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xformat.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestFullPssmEngineRunWithDiagnosticsRequest::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:773:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 773 | auto_ptr in + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:781:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 781 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*qid)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestInternalGapsInSubject::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:914:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 914 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*query_id)); | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:933:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 933 | auto_ptr< CNcbiMatrix > pssm_scores( | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=queryinfo_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=psiblast_iteration_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_iteration_unit_test.cpp -o psiblast_iteration_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie psiblast_iteration_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o psiblast_iteration_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psiblast_iteration_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f psiblast_iteration_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psiblast_iteration_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestNoDomainHits::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:995:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 995 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*query_id)); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:79: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:1014:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1014 | auto_ptr< CNcbiMatrix > pssm_scores( + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In static member function 'static ncbi::CRef CPssmCddInputTest::CreatePssmInput(EType)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:1147:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1147 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*query_id)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=remote_blast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:84: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, @@ -57872,12 +57892,27 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=queryinfo_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=remote_blast_unit_test -w -j12 --jobserver-auth=7,8 all /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp: In member function 'void pssmcreate::testFullPssmEngineRunWithDiagnosticsRequest::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:574:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 574 | auto_ptr in @@ -57944,6 +57979,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp: In member function 'void pssmcreate::testMultiSeqAlignmentHasRegionsUnalignedToQuery::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:868:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 868 | auto_ptr pssm_input @@ -57951,16 +57987,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:67: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp: In member function 'void pssmcreate::testQueryIsOnlyAlignedSequenceInMsa::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:1067:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1067 | auto_ptr pssm_input @@ -57989,12 +58015,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=phiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/phiblast_unit_test.cpp -o phiblast_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie phiblast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o phiblast_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f phiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f phiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/phiblast_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp: In member function 'void pssmcreate::testRejectNullsReturnedByPssmInput::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp:1219:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1219 | auto_ptr bad_pssm_data(new CNullPssmInput()); @@ -58009,80 +58029,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=remote_blast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestConvertSeqalignToCdMsa::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:511:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 511 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*qid)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:514:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 514 | auto_ptr in - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=remote_blast_unit_test -w -j12 --jobserver-auth=7,8 all -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestFullPssmEngineRunWithDiagnosticsRequest::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:773:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 773 | auto_ptr in - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:781:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 781 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*qid)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestInternalGapsInSubject::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:914:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 914 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*query_id)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:933:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 933 | auto_ptr< CNcbiMatrix > pssm_scores( - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In member function 'void pssmcreate_cdd::TestNoDomainHits::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:995:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 995 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*query_id)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:1014:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1014 | auto_ptr< CNcbiMatrix > pssm_scores( - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp: In static member function 'static ncbi::CRef CPssmCddInputTest::CreatePssmInput(EType)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp:1147:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1147 | auto_ptr q(CTestObjMgr::Instance().CreateSSeqLoc(*query_id)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -58191,157 +58140,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/pssm_engine.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastfilter_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp -o blastfilter_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastfilter_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastfilter_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastfilter_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastfilter_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastfilter_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rmblast_blasthits_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=ntlookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp -o ntlookup_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie ntlookup_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o ntlookup_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f ntlookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f ntlookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/ntlookup_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rmblast_traceback_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=rmblast_blasthits_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=prelimsearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp -o prelimsearch_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie prelimsearch_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o prelimsearch_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f prelimsearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f prelimsearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/prelimsearch_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=rmblast_traceback_unit_test -w -j12 --jobserver-auth=7,8 all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rps_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=rps_unit_test -w -j12 --jobserver-auth=7,8 all In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -58450,6 +58251,24 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=ntlookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp -o ntlookup_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie ntlookup_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o ntlookup_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f ntlookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f ntlookup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/ntlookup_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rmblast_blasthits_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=rmblast_blasthits_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_blasthits_unit_test.cpp:34: @@ -58561,20 +58380,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastsetup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp -o blastsetup_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastsetup_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastsetup_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastsetup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastsetup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastsetup_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rmblast_traceback_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=rmblast_traceback_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp:52: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -58683,93 +58509,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp: In member function 'void PssmEngineFreqRatios::AllZerosFreqRatios::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp:87:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 87 | auto_ptr pssm_input; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp:91:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 91 | auto_ptr< CNcbiMatrix > pssm - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp: In static member function 'static void CQueryDataTestFixture::s_ObjMgr_QueryFactory_LocalDataFromTSeqLocVector(const std::vector&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:520:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 520 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(qid)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp: In member function 'void QueryData::ObjMgr_QueryFactory_RemoteData_SingleBioseqFromTSeqLocVector::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:634:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 634 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(qid)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/pssm_engine.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -58794,124 +58538,27 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::ProteinGetQueryInfo::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:57:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 57 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::EmptyBlastxGetQueryInfo::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:80:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 80 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnGetQueryInfo::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:104:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 104 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:105:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 105 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnGetQueryIndex::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:128:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 128 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:129:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 129 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnSearchContextInfo::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:152:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 152 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 153 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=psibl2seq_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_unit_test.cpp -o psibl2seq_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie psibl2seq_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o psibl2seq_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psibl2seq_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f psibl2seq_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psibl2seq_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnSearchContextInfoSingleStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:188:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 188 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:190:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 190 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=scoreblk_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastsetup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp -o blastsetup_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastsetup_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastsetup_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastsetup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastsetup_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastsetup_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=blastfilter_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_unit_test.cpp -o blastfilter_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastfilter_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o blastfilter_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastfilter_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastfilter_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastfilter_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=scoreblk_unit_test -w -j12 --jobserver-auth=7,8 all make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=search_strategy_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rps_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=search_strategy_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=rps_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -59020,15 +58667,44 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=prelimsearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp -o prelimsearch_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie prelimsearch_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o prelimsearch_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f prelimsearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f prelimsearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/prelimsearch_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=scoreblk_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=scoreblk_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=psibl2seq_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_unit_test.cpp -o psibl2seq_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie psibl2seq_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o psibl2seq_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psibl2seq_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f psibl2seq_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psibl2seq_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=search_strategy_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=search_strategy_unit_test -w -j12 --jobserver-auth=7,8 all In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -59137,112 +58813,20 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:47: +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp:52: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/blast_setup.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_blasthits_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=ntscan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp -o ntscan_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie ntscan_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o ntscan_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f ntscan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f ntscan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/ntscan_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqinfosrc_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=seqinfosrc_unit_test -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp: In function 'std::string x_Stringify(TOBJ&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -59351,16 +58935,300 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp: In member function 'void remote_blast::GetSearchStrategy_FullQuery::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:1027:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1027 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp: In member function 'void remote_blast::GetSearchStrategy_QueryWithRange::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:1088:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1088 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api/blast_setup.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_blasthits_unit_test.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp: In member function 'void PssmEngineFreqRatios::AllZerosFreqRatios::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp:87:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 87 | auto_ptr pssm_input; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp:91:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 91 | auto_ptr< CNcbiMatrix > pssm + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp: In static member function 'static void CQueryDataTestFixture::s_ObjMgr_QueryFactory_LocalDataFromTSeqLocVector(const std::vector&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:520:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 520 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(qid)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp: In member function 'void QueryData::ObjMgr_QueryFactory_RemoteData_SingleBioseqFromTSeqLocVector::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp:634:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 634 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(qid)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::ProteinGetQueryInfo::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:57:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 57 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::EmptyBlastxGetQueryInfo::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:80:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 80 | auto_ptr qsl( + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnGetQueryInfo::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:104:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 104 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:105:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 105 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnGetQueryIndex::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:128:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 128 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:129:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 129 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnSearchContextInfo::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:152:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 152 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:153:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 153 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp: In member function 'void QueryInfo::BlastnSearchContextInfoSingleStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:188:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 188 | auto_ptr qsl1(CTestObjMgr::Instance().CreateSSeqLoc(id1, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp:190:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 190 | auto_ptr qsl2(CTestObjMgr::Instance().CreateSSeqLoc(id2)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -59397,14 +59265,42 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=pssmenginefreqratios_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp -o pssmenginefreqratios_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie pssmenginefreqratios_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o pssmenginefreqratios_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f pssmenginefreqratios_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f pssmenginefreqratios_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/pssmenginefreqratios_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=rmblast_blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_blasthits_unit_test.cpp -o rmblast_blasthits_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie rmblast_blasthits_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o rmblast_blasthits_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rmblast_blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f rmblast_blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rmblast_blasthits_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqsrc_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqinfosrc_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -59413,41 +59309,29 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=seqsrc_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=seqinfosrc_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=optionshandle_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/optionshandle_unit_test.cpp -o optionshandle_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie optionshandle_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o optionshandle_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f optionshandle_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f optionshandle_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/optionshandle_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=setupfactory_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -:55: note: in expansion of macro 'NCBI_BUILD_TIME' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' @@ -59549,6 +59433,139 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp: In function 'std::string x_Stringify(TOBJ&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp: In member function 'void RpsTestFixture::NuclSearch(ncbi::objects::ENa_strand)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:196:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 196 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp: In member function 'void rps::WholeSequenceMatch::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:217:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 217 | auto_ptr query( + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp: In member function 'void rps::TestCBSFreqsNotFound::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:317:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 317 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=ntscan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp -o ntscan_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie ntscan_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o ntscan_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f ntscan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f ntscan_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/ntscan_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp: In member function 'void traceback::testRMBlastTraceBack::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:184:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 184 | auto_ptr qsl( + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:187:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 187 | auto_ptr ssl( + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seqsrc_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=seqsrc_unit_test -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp: In member function 'void remote_blast::GetSearchStrategy_FullQuery::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:1027:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1027 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp: In member function 'void remote_blast::GetSearchStrategy_QueryWithRange::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp:1088:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1088 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc1_unit_test.cpp:34: @@ -59771,27 +59788,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=setupfactory_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -59900,181 +59899,77 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp: In member function 'void traceback::testRMBlastTraceBack::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:184:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 184 | auto_ptr qsl( - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:187:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 187 | auto_ptr ssl( - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp: In member function 'void RpsTestFixture::NuclSearch(ncbi::objects::ENa_strand)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:196:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 196 | auto_ptr query( - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp: In member function 'void rps::WholeSequenceMatch::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:217:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 217 | auto_ptr query( +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp: In member function 'void rps::TestCBSFreqsNotFound::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp:317:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 317 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqinfosrc_seqvec.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_Data; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 181 | auto_ptr m_OptionsBuilder; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp -o pssmcreate_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssm_test_util.cpp -o pssm_test_util.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp -o pssmcreate_cdd_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie pssmcreate_unit_test.o pssm_test_util.o pssmcreate_cdd_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o pssmcreate_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.1In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -2.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/pssmcreate_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=pssmenginefreqratios_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmenginefreqratios_unit_test.cpp -o pssmenginefreqratios_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie pssmenginefreqratios_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o pssmenginefreqratios_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f pssmenginefreqratios_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f pssmenginefreqratios_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/pssmenginefreqratios_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=split_query_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=setupfactory_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastNucleotideOptionsHandle; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastNucleotideOptionsHandle; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'void traceback::testRMBlastTraceBack::test_method()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:332:1: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void traceback::testRMBlastTraceBack::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=split_query_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=setupfactory_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp: In member function 'void seqinfosrc::testSeqVecSeqInfoSrc::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:70:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 70 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(seqid)); - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp: In member function 'void seqinfosrc::testSeqVecIndexOutOfRange::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:91:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 91 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(seqid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockNucl::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:67:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 67 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id, eNa_strand_both)); | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -60183,24 +60078,52 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockProtein::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:112:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 112 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockPHI::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:163:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 163 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockForFullyMaskedProtein::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:240:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 240 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id, range)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=queryinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp -o queryinfo_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie queryinfo_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o queryinfo_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f queryinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f queryinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/queryinfo_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=stat_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=rmblast_blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_blasthits_unit_test.cpp -o rmblast_blasthits_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie rmblast_blasthits_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o rmblast_blasthits_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rmblast_blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f rmblast_blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rmblast_blasthits_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=optionshandle_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/optionshandle_unit_test.cpp -o optionshandle_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie optionshandle_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o optionshandle_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f optionshandle_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f optionshandle_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/optionshandle_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp: In member function 'void search_strategy::ExportStrategy_FullQuery::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:285:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 285 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=subj_ranges_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=split_query_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp: In member function 'void search_strategy::ExportStrategy_QueryWithRange::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:347:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 347 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' @@ -60209,47 +60132,18 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=stat_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=subj_ranges_unit_test -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=split_query_unit_test -w -j12 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp: In member function 'void search_strategy::ExportStrategy_DBSoftMask::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:553:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 553 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/stat_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -60358,9 +60252,111 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqinfosrc_seqvec.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastNucleotideOptionsHandle; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastNucleotideOptionsHandle; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'void traceback::testRMBlastTraceBack::test_method()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp:332:1: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void traceback::testRMBlastTraceBack::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=queryinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/queryinfo_unit_test.cpp -o queryinfo_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie queryinfo_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o queryinfo_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f queryinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f queryinfo_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/queryinfo_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=stat_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp: In member function 'void seqinfosrc::testSeqVecSeqInfoSrc::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:70:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 70 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(seqid)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp: In member function 'void seqinfosrc::testSeqVecIndexOutOfRange::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp:91:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 91 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(seqid)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=stat_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/subj_ranges_unit_test.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/stat_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -60499,90 +60495,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp: In member function 'void setup_factory::CreateScoreBlockBadReward::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:72:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 72 | auto_ptr opts_memento (opts.CreateSnapshot()); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp: In member function 'void setup_factory::CreateScoreBlockMaskedSequence::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:88:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 88 | auto_ptr ssloc( - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:101:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 101 | auto_ptr opts_memento (opts.CreateSnapshot()); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp: In member function 'void setup_factory::CreateScoreBlockOK::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:122:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 122 | auto_ptr ssloc( - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:135:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 135 | auto_ptr opts_memento (opts.CreateSnapshot()); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_Data; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 181 | auto_ptr m_OptionsBuilder; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -ncbi::blast::CSearchResults> > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp: In member function 'void CRandomlyFailMockBlastSeqSrc::x_PopulateBLAST_SequenceBlk(BlastSeqSrcGetSeqArg*)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp:149:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 149 | auto_ptr sl @@ -60590,96 +60502,57 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp: In member function 'void search_strategy::ExportStrategy_FullQuery::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:285:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 285 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp: In member function 'void search_strategy::ExportStrategy_QueryWithRange::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:347:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 347 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockNucl::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:67:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 67 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id, eNa_strand_both)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockProtein::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:112:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 112 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockPHI::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:163:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 163 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id)); +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_unit_test.cpp -o pssmcreate_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssm_test_util.cpp -o pssm_test_util.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/pssmcreate_cdd_unit_test.cpp -o pssmcreate_cdd_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie pssmcreate_unit_test.o pssm_test_util.o pssmcreate_cdd_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o pssmcreate_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f pssmcreate_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/pssmcreate_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=subj_ranges_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc1_unit_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp: In member function 'void scoreblk::GetScoreBlockForFullyMaskedProtein::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp:240:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 240 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(id, range)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=rmblast_traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp -o rmblast_traceback_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie rmblast_traceback_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o rmblast_traceback_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rmblast_traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f rmblast_traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rmblast_traceback_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp: In member function 'void search_strategy::ExportStrategy_DBSoftMask::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp:553:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 553 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(*id)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=traceback_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=traceback_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp:37: +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=subj_ranges_unit_test -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc2_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -60704,9 +60577,10 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/subj_ranges_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -60815,10 +60689,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc2_unit_test.cpp:36: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=rmblast_traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rmblast_traceback_unit_test.cpp -o rmblast_traceback_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie rmblast_traceback_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o rmblast_traceback_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rmblast_traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f rmblast_traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rmblast_traceback_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=traceback_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=traceback_unit_test -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -60845,8 +60736,8 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc1_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -60871,15 +60762,147 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=querydata_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/querydata_unit_test.cpp -o querydata_unit_test.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie querydata_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o querydata_unit_test @@ -60898,6 +60921,15 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=tracebacksearch_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:34: @@ -61009,6 +61041,47 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp: In member function 'void setup_factory::CreateScoreBlockBadReward::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:72:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 72 | auto_ptr opts_memento (opts.CreateSnapshot()); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp: In member function 'void setup_factory::CreateScoreBlockMaskedSequence::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:88:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 88 | auto_ptr ssloc( + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:101:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 101 | auto_ptr opts_memento (opts.CreateSnapshot()); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp: In member function 'void setup_factory::CreateScoreBlockOK::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:122:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 122 | auto_ptr ssloc( + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp:135:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 135 | auto_ptr opts_memento (opts.CreateSnapshot()); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -61021,13 +61094,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp: In function 'ncbi::blast::TSeqLocVector s_getSequences()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp:88:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 88 | auto_ptr sl( - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=rps_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/rps_unit_test.cpp -o rps_unit_test.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie rps_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o rps_unit_test @@ -61046,6 +61112,13 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=uniform_search_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp: In function 'ncbi::blast::TSeqLocVector s_getSequences()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp:88:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 88 | auto_ptr sl( + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:35: @@ -61158,53 +61231,14 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqinfosrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp -o seqinfosrc_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqinfosrc_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o seqinfosrc_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqinfosrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seqinfosrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqinfosrc_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/test_objmgr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=version_reference_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=stat_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/stat_unit_test.cpp -o stat_unit_test.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie stat_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o stat_unit_test /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f stat_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f stat_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/stat_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=convert2blastmask LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=version_reference_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. @@ -61212,16 +61246,37 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=version_reference_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=scoreblk_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp -o scoreblk_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie scoreblk_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o scoreblk_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f scoreblk_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f scoreblk_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/scoreblk_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=convert2blastmask LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=version_reference_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=convert2blastmask -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/version_reference_unit_test.cpp:34: @@ -61333,6 +61388,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=convert2blastmask -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -61443,9 +61500,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/traceback_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, @@ -61456,14 +61519,18 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/simple/simple_om.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:38: @@ -61486,10 +61553,10 @@ 64 | template class auto_ptr; | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=setupfactory_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp -o setupfactory_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie setupfactory_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o setupfactory_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f setupfactory_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f setupfactory_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/setupfactory_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqinfosrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqinfosrc_unit_test.cpp -o seqinfosrc_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqinfosrc_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o seqinfosrc_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqinfosrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seqinfosrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqinfosrc_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd app/segmasker/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=segmasker LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null @@ -61613,34 +61680,20 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/traceback_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp: In member function 'ncbi::blast::CSearchResultSet CTracebackSearchTestFixture::x_Traceback(ncbi::CSeqDBGiList*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:269:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 269 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(query)); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -61650,6 +61703,20 @@ /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f search_strategy_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f search_strategy_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/search_strategy_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp: In member function 'void tracebacksearch::SimpleTraceback::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:331:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 331 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(query)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp: In member function 'void tracebacksearch::TracebackWithPssm_AndWarning::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:375:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 375 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(query)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd algo/blast/format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xblastformat UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' @@ -61661,15 +61728,7 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format TMPL=xblastformat -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp -o blastfmtutil.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp -o blastxml_format.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp -o blastxml2_format.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp -o blast_format.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xmlformat.cpp -o data4xmlformat.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xml2format.cpp -o data4xml2format.o -/usr/bin/g++ -std=gnu++1In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -61682,15 +61741,22 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=setupfactory_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/setupfactory_unit_test.cpp -o setupfactory_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie setupfactory_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o setupfactory_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f setupfactory_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f setupfactory_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/setupfactory_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp -o blastfmtutil.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp -o blastxml_format.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp -o blastxml2_format.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp -o blast_format.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xmlformat.cpp -o data4xmlformat.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xml2format.cpp -o data4xml2format.o +/usr/bin/g++ -std=gnu++1In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, @@ -61749,6 +61815,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -61761,12 +61830,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -61779,12 +61848,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -61797,12 +61866,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -61815,12 +61884,17 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -61833,12 +61907,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -61851,9 +61925,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -61926,24 +62018,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, @@ -62061,12 +62135,28 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_async_format.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -62175,21 +62265,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -62213,8 +62288,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_async_format.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -62341,12 +62415,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp -o seqsrc_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp -o seqsrc_mock.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc1_unit_test.cpp -o mockseqsrc1_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc2_unit_test.cpp -o mockseqsrc2_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqsrc_unit_test.o seqsrc_mock.o mockseqsrc1_unit_test.o mockseqsrc2_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariat/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testBLASTNTraceBack::test_method()': +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp: In member function 'void traceback::testBLASTNTraceBack::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:211:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 211 | auto_ptr qsl( | ^~~~~~~~ @@ -62424,32 +62513,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -ion -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o seqsrc_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqsrc_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_unit_test.cpp -o seqsrc_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp -o seqsrc_mock.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc1_unit_test.cpp -o mockseqsrc1_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc2_unit_test.cpp -o mockseqsrc2_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqsrc_unit_test.o seqsrc_mock.o mockseqsrc1_unit_test.o mockseqsrc2_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariatmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=subj_ranges_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/subj_ranges_unit_test.cpp -o subj_ranges_unit_test.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie subj_ranges_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o subj_ranges_unit_test /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f subj_ranges_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin @@ -62494,44 +62563,11 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=version_reference_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/version_reference_unit_test.cpp -o version_reference_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie version_reference_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o version_reference_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f version_reference_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f version_reference_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/version_reference_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=scoreblk_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/scoreblk_unit_test.cpp -o scoreblk_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie scoreblk_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o scoreblk_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f scoreblk_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f scoreblk_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/scoreblk_unit_test +ion -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o seqsrc_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seqsrc_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seqsrc_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:54: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; @@ -62562,13 +62598,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp: In member function 'ncbi::blast::CSearchResultSet CTracebackSearchTestFixture::x_Traceback(ncbi::CSeqDBGiList*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:269:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 269 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(query)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -62578,17 +62607,17 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp: In member function 'void tracebacksearch::SimpleTraceback::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:331:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 331 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(query)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp: In member function 'void tracebacksearch::TracebackWithPssm_AndWarning::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp:375:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 375 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(query)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -62599,6 +62628,77 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_search.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 94 | objects::CFastaReader::fAllSeqIds | + | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here + 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) + | ^~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=version_reference_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/version_reference_unit_test.cpp -o version_reference_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie version_reference_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o version_reference_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f version_reference_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f version_reference_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/version_reference_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp: In function 'ncbi::blast::CSearchResultSet RunMultipleProteinSearch(ncbi::blast::ISearchFactory&, const std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:87:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 87 | auto_ptr sl0(CTestObjMgr::Instance().CreateSSeqLoc(query_id0)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:90:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 90 | auto_ptr sl1(CTestObjMgr::Instance().CreateSSeqLoc(query_id1)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; @@ -62613,24 +62713,45 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_search.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:52: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/segmask/segmask.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:55: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:39: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -62646,16 +62767,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -62674,19 +62785,105 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp: In function 'ncbi::blast::CSearchResultSet RunMultipleProteinSearch(ncbi::blast::ISearchFactory&, const std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:87:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 87 | auto_ptr sl0(CTestObjMgr::Instance().CreateSSeqLoc(query_id0)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp: In member function 'virtual void SegMaskerApplication::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:104:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 104 | auto_ptr arg_desc(new CArgDescriptions); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp: In member function 'virtual int SegMaskerApplication::Run()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:225:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 225 | auto_ptr reader(x_GetReader()); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp:90:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 90 | auto_ptr sl1(CTestObjMgr::Instance().CreateSSeqLoc(query_id1)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:226:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 226 | auto_ptr writer(x_GetWriter()); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:239:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 239 | auto_ptr masks(masker(sequence_data)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/sam_formatter.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/sam.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/sam.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/sam_formatter.hpp:37: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 743 | auto_ptr m_ObjectStream; @@ -62694,22 +62891,21 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/build_archive.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp:37: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/sam.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -62725,16 +62921,63 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xmlformat.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xmlformat.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -62750,6 +62993,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: @@ -62777,12 +63026,44 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:39: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1554 | static auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, @@ -62814,13 +63095,19 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:36: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -62838,9 +63125,10 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xmlformat.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/build_archive.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -62848,10 +63136,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seq/Seq_annot.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xmlformat.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbitime.hpp:65, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_system.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -62867,41 +63154,48 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp: In member function 'virtual void CConvert2BlastMaskApplication::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:148:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 148 | auto_ptr arg_desc(new CArgDescriptions); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp: In member function 'virtual int CConvert2BlastMaskApplication::Run()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:223:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 223 | auto_ptr reader(x_GetReader()); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:224:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 224 | auto_ptr writer(x_GetWriter()); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:39: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -62917,21 +63211,33 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/seqmasks_io/mask_fasta_reader.hpp:94:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 94 | objects::CFastaReader::fAllSeqIds | - | ^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:92:9: note: declared here - 92 | fAllSeqIds NCBI_STD_DEPRECATED("This flag is no longer used in CFastaReader.") = 1<< 6, ///< Read Seq-ids past the first ^A (see note) - | ^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -62962,9 +63268,9 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:44: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastxml2_format.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -62989,43 +63295,36 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:36: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastxml_format.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:43: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -63050,54 +63349,40 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp: In member function 'virtual void CConvert2BlastMaskApplication::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:148:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 148 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp: In member function 'virtual int CConvert2BlastMaskApplication::Run()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:223:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 223 | auto_ptr reader(x_GetReader()); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp:224:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 224 | auto_ptr writer(x_GetWriter()); - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ @@ -63114,16 +63399,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here 178 | NCBI_DEPRECATED char* GetFilterString() const; | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:52: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:44: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -63148,14 +63425,8 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -63166,107 +63437,83 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 178 | auto_ptr m_Data; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 181 | auto_ptr m_OptionsBuilder; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/segmask/segmask.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:178:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 178 | auto_ptr m_Data; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/search_strategy.hpp:181:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 181 | auto_ptr m_OptionsBuilder; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -63303,21 +63550,30 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastxml_format.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -63342,33 +63598,29 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/sam_formatter.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/sam.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/sam.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/sam_formatter.hpp:37: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/sam_formatter.hpp:38: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'void ncbi::objects::CBlast_SAM_Formatter::Print(const ncbi::objects::CSeq_align_set&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/sam.cpp:76:3: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CBlast_SAM_Formatter::Print(const ncbi::objects::CSeq_align_set&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp: In member function 'virtual std::string ncbi::CCmdLineBlastXMLReportData::GetFilterString() const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:155:38: warning: 'char* ncbi::blast::CBlastOptions::GetFilterString() const' is deprecated [-Wdeprecated-declarations] 155 | m_Options.GetFilterString(); /* NCBI_FAKE_WARNING */ @@ -63379,182 +63631,127 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here 178 | NCBI_DEPRECATED char* GetFilterString() const; | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp: In static member function 'static void ncbi::CBlastFormatUtil::PrintAsciiPssm(const ncbi::objects::CPssmWithParameters&, ncbi::CConstRef, ncbi::CNcbiOstream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp:205:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 205 | auto_ptr< TNcbiMatrixInt > pssm | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:48, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastxml2_format.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml2_format.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp:207:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 207 | auto_ptr< TNcbiMatrixDouble > weighted_res_freqs | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp: In member function 'virtual void SegMaskerApplication::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:104:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 104 | auto_ptr arg_desc(new CArgDescriptions); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp: In member function 'virtual int SegMaskerApplication::Run()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:225:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 225 | auto_ptr reader(x_GetReader()); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:226:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 226 | auto_ptr writer(x_GetWriter()); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp:239:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 239 | auto_ptr masks(masker(sequence_data)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:49: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp: In function 'void ncbi::s_SeqAlignSetToXMLHits(std::__cxx11::list >&, const objects::CSeq_align_set&, objects::CScope*, const CBlastFormattingMatrix*, const TMaskedQueryRegions*, bool, int, int, CNcbiOstream*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:501:17: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 501 | auto_ptr xml_one_hit_os (new CObjectOStreamXml (one_hit_os,false)); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:501:100: warning: 'ncbi::CObjectOStreamXml::CObjectOStreamXml(ncbi::CNcbiOstream&, bool)' is deprecated [-Wdeprecated-declarations] + 501 | auto_ptr xml_one_hit_os (new CObjectOStreamXml (one_hit_os,false)); + | ^ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objostrxml.hpp:66:26: note: declared here + 66 | NCBI_DEPRECATED_CTOR(CObjectOStreamXml(CNcbiOstream& out, bool deleteOut)); + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:1192:38: note: in definition of macro 'NCBI_DEPRECATED_CTOR' + 1192 | # define NCBI_DEPRECATED_CTOR(decl) decl NCBI_DEPRECATED + | ^~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp: In function 'void ncbi::BlastXML_FormatReport(objects::CBlastOutput&, const IBlastXMLReportData*, CNcbiOstream*, SBlastXMLIncremental*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:719:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 719 | auto_ptr< CBlastFormattingMatrix > matrix(data->GetMatrix()); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp: In function 'bool ncbi::s_SerializeAndSplitBy(const CSerialObject&, const char*, std::string&, std::string&, bool, bool)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:785:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 785 | auto_ptr xml_one_iter_os(new CObjectOStreamXml (one_iter_ss_os,false)); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:785:96: warning: 'ncbi::CObjectOStreamXml::CObjectOStreamXml(ncbi::CNcbiOstream&, bool)' is deprecated [-Wdeprecated-declarations] + 785 | auto_ptr xml_one_iter_os(new CObjectOStreamXml (one_iter_ss_os,false)); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objostrxml.hpp:66:26: note: declared here + 66 | NCBI_DEPRECATED_CTOR(CObjectOStreamXml(CNcbiOstream& out, bool deleteOut)); + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:1192:38: note: in definition of macro 'NCBI_DEPRECATED_CTOR' + 1192 | # define NCBI_DEPRECATED_CTOR(decl) decl NCBI_DEPRECATED + | ^~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastQueryVector; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastQueryVector; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = ncbi::CRef*; _Size = long unsigned int; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:272:17: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = ncbi::CRef*; _Size = long unsigned int; _Tp = ncbi::CRef]': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ @@ -63570,51 +63767,44 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/sam.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp: In static member function 'static void ncbi::CBlastFormatUtil::PrintAsciiPssm(const ncbi::objects::CPssmWithParameters&, ncbi::CConstRef, ncbi::CNcbiOstream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp:205:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 205 | auto_ptr< TNcbiMatrixInt > pssm +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastfmtutil.cpp:207:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 207 | auto_ptr< TNcbiMatrixDouble > weighted_res_freqs +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: @@ -63659,39 +63849,19 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=convert2blastmask /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp -o convert2blastmask.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie convert2blastmask.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -llmdb -lpthread -lm -lpthread -o convert2blastmask +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f convert2blastmask /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f convert2blastmask /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/convert2blastmask +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, @@ -63703,7 +63873,13 @@ inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); @@ -63712,121 +63888,127 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_async_format.cpp: In member function 'virtual void* CBlastAsyncFormatThread::Main()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_async_format.cpp:122:49: warning: comparison of integer expressions of different signedness: 'std::map >::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] + 122 | if (m_ResultsMap.size() != currNum) + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=segmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp -o segmasker.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie segmasker.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjsimple -lxalgosegmask -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o segmasker +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f segmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f segmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/segmasker +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=tracebacksearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp -o tracebacksearch_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie tracebacksearch_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o tracebacksearch_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f tracebacksearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f tracebacksearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/tracebacksearch_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp: In function 'void ncbi::s_SeqAlignSetToXMLHits(std::__cxx11::list >&, const objects::CSeq_align_set&, objects::CScope*, const CBlastFormattingMatrix*, const TMaskedQueryRegions*, bool, int, int, CNcbiOstream*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:501:17: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 501 | auto_ptr xml_one_hit_os (new CObjectOStreamXml (one_hit_os,false)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:501:100: warning: 'ncbi::CObjectOStreamXml::CObjectOStreamXml(ncbi::CNcbiOstream&, bool)' is deprecated [-Wdeprecated-declarations] - 501 | auto_ptr xml_one_hit_os (new CObjectOStreamXml (one_hit_os,false)); - | ^ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objostrxml.hpp:66:26: note: declared here - 66 | NCBI_DEPRECATED_CTOR(CObjectOStreamXml(CNcbiOstream& out, bool deleteOut)); - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:1192:38: note: in definition of macro 'NCBI_DEPRECATED_CTOR' - 1192 | # define NCBI_DEPRECATED_CTOR(decl) decl NCBI_DEPRECATED - | ^~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp -o traceback_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie traceback_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o traceback_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/traceback_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +In member function 'void ncbi::CObject::AddReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, + inlined from 'void ncbi::CObjectCounterLocker::Relock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:525:9, + inlined from 'void ncbi::CRef::x_LockFromRef() [with C = ncbi::objects::CHsp; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1204:38, + inlined from 'ncbi::CRef::CRef(const TThisType&) [with C = ncbi::objects::CHsp; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:662:26, + inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = ncbi::CRef; _Args = {const ncbi::CRef&}; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/new_allocator.h:175:4, + inlined from 'static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = ncbi::CRef; _Args = {const ncbi::CRef&}; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/alloc_traits.h:516:17, + inlined from 'std::__cxx11::list<_Tp, _Alloc>::_Node* std::__cxx11::list<_Tp, _Alloc>::_M_create_node(_Args&& ...) [with _Args = {const ncbi::CRef&}; _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:713:33, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_insert(iterator, _Args&& ...) [with _Args = {const ncbi::CRef&}; _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:2005:32, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:1306:24, + inlined from 'void ncbi::s_SeqAlignSetToXMLHsps(std::__cxx11::list >&, const objects::CSeq_align_set&, objects::CScope*, const CBlastFormattingMatrix*, const TMaskedQueryRegions*, int, int)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:164:32: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 494 | CheckReferenceOverflow(newCount - eCounterStep); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void ncbi::s_SeqAlignSetToXMLHsps(std::__cxx11::list >&, const objects::CSeq_align_set&, objects::CScope*, const CBlastFormattingMatrix*, const TMaskedQueryRegions*, int, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp: In function 'void ncbi::BlastXML_FormatReport(objects::CBlastOutput&, const IBlastXMLReportData*, CNcbiOstream*, SBlastXMLIncremental*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:719:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 719 | auto_ptr< CBlastFormattingMatrix > matrix(data->GetMatrix()); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp: In function 'bool ncbi::s_SerializeAndSplitBy(const CSerialObject&, const char*, std::string&, std::string&, bool, bool)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:785:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 785 | auto_ptr xml_one_iter_os(new CObjectOStreamXml (one_iter_ss_os,false)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:785:96: warning: 'ncbi::CObjectOStreamXml::CObjectOStreamXml(ncbi::CNcbiOstream&, bool)' is deprecated [-Wdeprecated-declarations] - 785 | auto_ptr xml_one_iter_os(new CObjectOStreamXml (one_iter_ss_os,false)); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/objostrxml.hpp:66:26: note: declared here - 66 | NCBI_DEPRECATED_CTOR(CObjectOStreamXml(CNcbiOstream& out, bool deleteOut)); - | ^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:1192:38: note: in definition of macro 'NCBI_DEPRECATED_CTOR' - 1192 | # define NCBI_DEPRECATED_CTOR(decl) decl NCBI_DEPRECATED - | ^~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp: In member function 'virtual std::string ncbi::CCmdLineBlastXMLReportData::GetFilterString() const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xmlformat.hpp:155:38: warning: 'char* ncbi::blast::CBlastOptions::GetFilterString() const' is deprecated [-Wdeprecated-declarations] @@ -63838,9 +64020,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:178:27: note: declared here 178 | NCBI_DEPRECATED char* GetFilterString() const; | ^~~~~~~~~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp: In member function 'virtual std::string ncbi::CCmdLineBlastXML2ReportData::GetFilterString() const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:140:39: warning: 'char* ncbi::blast::CBlastOptions::GetFilterString() const' is deprecated [-Wdeprecated-declarations] @@ -63858,43 +64037,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastQueryVector; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastQueryVector; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = ncbi::CRef*; _Size = long unsigned int; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:272:17: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = ncbi::CRef*; _Size = long unsigned int; _Tp = ncbi::CRef]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/jsonwrapp11.hpp:75, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/jsonwrapp.hpp:29, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_format.cpp:53: @@ -63914,92 +64056,18 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:88:8: note: 'struct rapidjson::GenericMember, rapidjson::MemoryPoolAllocator<> >' declared here 88 | struct GenericMember { | ^~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqalign/Seq_align.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/format/sam_formatter.hpp:38: -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::objects::CSeq_align; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'void ncbi::objects::CBlast_SAM_Formatter::Print(const ncbi::objects::CSeq_align_set&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/sam.cpp:76:3: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void ncbi::objects::CBlast_SAM_Formatter::Print(const ncbi::objects::CSeq_align_set&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=segmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/segmasker/segmasker.cpp -o segmasker.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie segmasker.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lxobjsimple -lxalgosegmask -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o segmasker -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f segmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f segmasker /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/segmasker -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=convert2blastmask /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.cpp -o convert2blastmask.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie convert2blastmask.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -llmdb -lpthread -lm -lpthread -o convert2blastmask -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f convert2blastmask /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f convert2blastmask /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/convert2blastmask -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=uniform_search_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_unit_test.cpp -o uniform_search_unit_test.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie uniform_search_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o uniform_search_unit_test /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f uniform_search_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f uniform_search_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/uniform_search_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_async_format.cpp: In member function 'virtual void* CBlastAsyncFormatThread::Main()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blast_async_format.cpp:122:49: warning: comparison of integer expressions of different signedness: 'std::map >::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] - 122 | if (m_ResultsMap.size() != currNum) - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp -o traceback_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie traceback_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o traceback_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f traceback_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/traceback_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=tracebacksearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_unit_test.cpp -o tracebacksearch_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie tracebacksearch_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o tracebacksearch_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f tracebacksearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f tracebacksearch_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/tracebacksearch_unit_test +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=split_query_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp -o split_query_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie split_query_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o split_query_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f split_query_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f split_query_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/split_query_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h: In instantiation of 'void rapidjson::GenericValue::SetObjectRaw(Member*, rapidjson::SizeType, Allocator&) [with Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; Member = rapidjson::GenericMember, rapidjson::MemoryPoolAllocator<> >; rapidjson::SizeType = unsigned int]': @@ -64030,38 +64098,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:564:7: note: 'class rapidjson::GenericValue >' declared here 564 | class GenericValue { | ^~~~~~~~~~~~ -In member function 'void ncbi::CObject::AddReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Lock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:518:25, - inlined from 'void ncbi::CObjectCounterLocker::Relock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:525:9, - inlined from 'void ncbi::CRef::x_LockFromRef() [with C = ncbi::objects::CHsp; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:1204:38, - inlined from 'ncbi::CRef::CRef(const TThisType&) [with C = ncbi::objects::CHsp; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:662:26, - inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = ncbi::CRef; _Args = {const ncbi::CRef&}; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/new_allocator.h:175:4, - inlined from 'static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = ncbi::CRef; _Args = {const ncbi::CRef&}; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/alloc_traits.h:516:17, - inlined from 'std::__cxx11::list<_Tp, _Alloc>::_Node* std::__cxx11::list<_Tp, _Alloc>::_M_create_node(_Args&& ...) [with _Args = {const ncbi::CRef&}; _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:713:33, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_insert(iterator, _Args&& ...) [with _Args = {const ncbi::CRef&}; _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:2005:32, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:1306:24, - inlined from 'void ncbi::s_SeqAlignSetToXMLHsps(std::__cxx11::list >&, const objects::CSeq_align_set&, objects::CScope*, const CBlastFormattingMatrix*, const TMaskedQueryRegions*, int, int)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.cpp:164:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:494:31: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 494 | CheckReferenceOverflow(newCount - eCounterStep); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In function 'void ncbi::s_SeqAlignSetToXMLHsps(std::__cxx11::list >&, const objects::CSeq_align_set&, objects::CScope*, const CBlastFormattingMatrix*, const TMaskedQueryRegions*, int, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=remote_blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/remote_blast_unit_test.cpp -o remote_blast_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie remote_blast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o remote_blast_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f remote_blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f remote_blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/remote_blast_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=split_query_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/split_query_unit_test.cpp -o split_query_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie split_query_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o split_query_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f split_query_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f split_query_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/split_query_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' 4 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/build_archive.cpp -o build_archive.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/vecscreen_run.cpp -o vecscreen_run.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/sam.cpp -o sam.o @@ -64075,126 +64111,126 @@ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' cd algo/blast/blastinput/unit_test/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastinput_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=bl2seq_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=delta_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=magicblast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psiblast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=redoalignment_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=delta_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=magicblast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psiblast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/blast_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_format_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=redoalignment_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/blast_format/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_format_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: warning: -j12 forced in submake: resetting jobserver mode. cd algo/blast/unit_tests/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=bdbloader_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_formatter LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_report LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blast_report LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastn LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastn LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=bl2seq_unit_test -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test TMPL=blastinput_unit_test -w -j12 --jobserver-auth=7,8 all make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=delta_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=redoalignment_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=magicblast_unit_test -w -j12 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb TMPL=bdbloader_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=psiblast_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blast_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=psiblast_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=delta_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=magicblast_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=redoalignment_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=bl2seq_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test TMPL=blastinput_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format TMPL=blast_format_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb TMPL=bdbloader_unit_test -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blast_report -w -j12 --jobserver-auth=7,8 all /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blastn -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format TMPL=blast_format_unit_test -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=blast_unit_test -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blast_report -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blast_formatter -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. @@ -64204,9 +64240,19 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/magicblast_unit_test.cpp:32: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -64315,17 +64361,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/magicblast_unit_test.cpp:32: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' +55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' @@ -64429,7 +64465,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -64540,16 +64576,16 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp:47: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -64565,9 +64601,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -64583,9 +64619,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -64601,9 +64637,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -64619,9 +64655,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -64637,9 +64673,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -64650,7 +64686,8 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:34: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -64760,8 +64797,7 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -64879,6 +64915,15 @@ 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME,In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' @@ -64911,6 +64956,20 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ +/build/reproducible-path/ncbi NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -64923,11 +64982,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ @@ -64941,12 +65000,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -64959,34 +65018,19 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: i-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' @@ -64997,30 +65041,23 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + | n expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:158:58: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 158 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:61: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ @@ -65034,12 +65071,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ + | ^~~~~~~~~~~ ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -65052,9 +65086,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:177:45: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 177 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:195:85: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 195 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -65093,16 +65128,16 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -65118,9 +65153,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -65136,9 +65171,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -65154,9 +65189,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -65172,9 +65207,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -65190,9 +65225,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -65203,14 +65238,7 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_input_unit_test_aux.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:64: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) - | ^ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -65319,6 +65347,12 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -65536,7 +65570,8 @@ 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -65645,9 +65680,31 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:53: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:51: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -65756,41 +65813,25 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:54: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:55: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelibIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | /version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' @@ -65823,7 +65864,20 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:170:69: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 170 | CVersion(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c+ ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ ++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' @@ -65892,46 +65946,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:51: @@ -66043,9 +66057,34 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:51: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -66154,9 +66193,50 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: note: in definition of macro 'NCBI_BUILD_TIME' + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:55: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_input_unit_test_aux.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:64: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -66265,50 +66345,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp:35: @@ -66323,118 +66359,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:34: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/magicblast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/magicblast_unit_test.cpp:54: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqinfosrc_seqdb.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -66442,8 +66372,10 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -66494,14 +66426,27 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:35: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -66517,24 +66462,23 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seqinfosrc_seqdb.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -66542,30 +66486,23 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialbase.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqloc/Seq_loc.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -66582,24 +66519,68 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:34: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:45: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbictype.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistre.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_stack.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -66635,19 +66616,23 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -66666,25 +66651,32 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp: In function 'void s_LoadSeqAlignsFromFile(ncbi::objects::CSeq_align_set&, const std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:241:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 241 | auto_ptr asn_in(CObjectIStream::Open(fname, eSerial_AsnText)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:48: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -66700,9 +66692,20 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:40: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/annot_types_ci.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/feat_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:50, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -66723,10 +66726,20 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/magicblast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/magicblast_unit_test.cpp:54: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -66744,21 +66757,10 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -66781,9 +66783,37 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp:47: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -66796,6 +66826,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -66808,6 +66844,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, @@ -66818,29 +66861,15 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -66853,40 +66882,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp: In function 'void s_LoadSeqAlignsFromFile(ncbi::objects::CSeq_align_set&, const std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp:241:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 241 | auto_ptr asn_in(CObjectIStream::Open(fname, eSerial_AsnText)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -66921,66 +66934,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:51: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/bl2seq.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/nc/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -bi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; - | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -67029,40 +66988,36 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:52: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -67072,25 +67027,28 @@ /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/build_archive.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:52: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastp LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -67103,8 +67061,31 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=blastp -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ + ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -67213,41 +67194,11 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -67353,108 +67304,66 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp:66: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/seq_loc_util.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/build_archive.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp:52: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/vecscreen_run.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:48: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -67507,7 +67416,29 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:54: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 364 | auto_ptr &feat_ci, | ^~~~~~~~ @@ -67520,103 +67451,124 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/blastdb/bdbloader.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_test_util.hpp:56, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp:66: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:51: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -67633,49 +67585,54 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:57: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:49: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -67706,108 +67663,102 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:43: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:52: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 62 | typedef auto_ptr TObjectType; | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/usIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp: In member function 'void blastfmtutil::GetAlnScoresAndGetScoreString::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:168:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 168 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here +r/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp: In member function 'void blastfmtutil::GetSubjectQueryCoverageScore::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:201:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 201 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/vecscreen_run.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:65: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp: In static member function 'static void CRedoAlignmentTestFixture::runRedoAlignmentCoreUnitTest(EBlastProgramType, ncbi::objects::CSeq_id&, ncbi::objects::CSeq_id&, BlastHSPList*, const BlastHSPList*, Int8, ECompoAdjustModes, bool, double, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:210:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 210 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(qid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:211:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 211 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(sid)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp: In member function 'void RedoAlignment::testRedoAlignmentWithCompBasedStatsBadlyBiasedSequence::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:636:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 636 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(subj_id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -67823,14 +67774,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -67849,6 +67793,7 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ @@ -67857,7 +67802,7 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:46: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ @@ -67894,195 +67839,223 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In function 'std::string* blastinput::s_FileContents2String(const char*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1669:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1669 | auto_ptr retval(new string); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadAccessionNucleotideIntoBuffer_Single::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1681:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1681 | auto_ptr user_input(s_FileContents2String(fname)); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadGiNuclWithFlankingSpacesIntoBuffer_Single::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1735:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1735 | auto_ptr user_input(new string(" 1945386 \n ")); - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:65: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:61: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadAccessionNuclWithFlankingSpacesIntoBuffer_Single::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1808:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1808 | auto_ptr user_input(new string(" X65215.1 ")); - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp: In member function 'int CBlastnApp::x_RunMTBySplitQuery()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:320:17: note: in expansion of macro 'INFO_POST' + 320 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 198 | ERR_POST(severity << message); while(0) + | ^~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:320:17: note: in expansion of macro 'INFO_POST' + 320 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:54: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadFastaWithDeflineProteinIntoBuffer_Single::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1882:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1882 | auto_ptr user_input(s_FileContents2String(fname)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp: In static member function 'static void CRedoAlignmentTestFixture::runRedoAlignmentCoreUnitTest(EBlastProgramType, ncbi::objects::CSeq_id&, ncbi::objects::CSeq_id&, BlastHSPList*, const BlastHSPList*, Int8, ECompoAdjustModes, bool, double, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:210:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 210 | auto_ptr qsl(CTestObjMgr::Instance().CreateSSeqLoc(qid)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:211:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 211 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(sid)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp: In member function 'void RedoAlignment::testRedoAlignmentWithCompBasedStatsBadlyBiasedSequence::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp:636:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 636 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc(subj_id)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:57: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'ncbi::CArgs* blastargs::CString2Args::CreateCArgs(ncbi::blast::CBlastAppArgs&) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3227:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3227 | auto_ptr arg_desc(args.SetCommandLine()); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::PsiBlastAppTestMatrix::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3289:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3289 | auto_ptr args(s2a.CreateCArgs(psiblast_args)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::RpsBlastCBS::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3300:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3300 | auto_ptr args(s2a.CreateCArgs(rpsblast_args)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckMutuallyExclusiveOptions::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3320:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3320 | auto_ptr args; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 771 | auto_ptr m_BaseTSE; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckDiscoMegablast::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3327:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3327 | auto_ptr args; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckPercentIdentity::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3351:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3351 | auto_ptr args; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp: In member function 'virtual void CBlastReportApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:107:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 107 | auto_ptr arg_desc(new CArgDescriptions); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckNoGreedyExtension::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3365:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3365 | auto_ptr args; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp: In member function 'void blastfmtutil::GetAlnScoresAndGetScoreString::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:168:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 168 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckCulling::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3387:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3387 | auto_ptr args; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp: In member function 'void blastfmtutil::GetSubjectQueryCoverageScore::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp:201:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 201 | auto_ptr in(CObjectIStream::Open(eSerial_AsnText, is)); + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckQueryCoveragePercent::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3415:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3415 | auto_ptr args; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckMaxHspsPerSubject::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3429:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 3429 | auto_ptr args; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:68: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:61: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -68095,27 +68068,15 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp: In member function 'virtual void CBlastReportApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp:107:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 107 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp: In member function 'virtual void CBlastFormatterApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:116:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 116 | auto_ptr arg_desc(new CArgDescriptions); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -68127,7 +68088,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -68155,83 +68116,29 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp: In member function 'int CBlastnApp::x_RunMTBySplitQuery()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:320:17: note: in expansion of macro 'INFO_POST' - 320 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 198 | ERR_POST(severity << message); while(0) - | ^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp:320:17: note: in expansion of macro 'INFO_POST' - 320 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_loadlock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/request_result.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/reader_id2_base.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/id2/reader_id2.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/tse_info.hpp:771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 771 | auto_ptr m_BaseTSE; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinBlastSelfHit::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:584:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 584 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:68: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:55: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinBlastSelfHit::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:584:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 584 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -68249,6 +68156,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastn2SeqsRevStrand1::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:666:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 666 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); @@ -68275,6 +68188,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastn2SeqsCompBasedStats::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:720:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 720 | auto_ptr query(CTestObjMgr::Instance().CreateSSeqLoc(qid)); @@ -68427,37 +68346,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/build_archive.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:58: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlastMultipleQueriesWithInvalidSeqId::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1426:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1426 | auto_ptr sl1(CTestObjMgr::Instance().CreateSSeqLoc(*id1)); @@ -68477,31 +68365,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1458:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1458 | auto_ptr subj_loc | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::ProteinCompBasedStats::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1620:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1620 | auto_ptr ss2(CTestObjMgr::Instance().CreateSSeqLoc(id)); @@ -68522,6 +68391,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideSelfHitWithSubjectMask::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1672:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1672 | auto_ptr subject(new SSeqLoc(ssl, scope, subj_mask)); @@ -68588,13 +68463,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp: In member function 'virtual void CBlastFormatterApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp:116:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 116 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastx2Seqs_QueryBothStrands::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1907:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1907 | auto_ptr sl( @@ -68602,19 +68470,16 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastx2Seqs_QueryPlusStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1920:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1920 | auto_ptr sl( | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TBlastx2Seqs_QueryPlusStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1920:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1920 | auto_ptr sl( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In function 'std::string* blastinput::s_FileContents2String(const char*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1669:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1669 | auto_ptr retval(new string); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -68626,6 +68491,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadAccessionNucleotideIntoBuffer_Single::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1681:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1681 | auto_ptr user_input(s_FileContents2String(fname)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::TblastxManyHits::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1949:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1949 | auto_ptr qsl( @@ -68652,6 +68524,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadGiNuclWithFlankingSpacesIntoBuffer_Single::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1735:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1735 | auto_ptr user_input(new string(" 1945386 \n ")); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithRepeatFiltering_InvalidDB::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2001:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 2001 | auto_ptr query( @@ -68673,6 +68552,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadAccessionNuclWithFlankingSpacesIntoBuffer_Single::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1808:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1808 | auto_ptr user_input(new string(" X65215.1 ")); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithWindowMasker_Taxid::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2072:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 2072 | auto_ptr query( @@ -68694,6 +68580,13 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastinput::ReadFastaWithDeflineProteinIntoBuffer_Single::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:1882:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1882 | auto_ptr user_input(s_FileContents2String(fname)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::BlastnWithWindowMasker_DbAndTaxid::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2132:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 2132 | auto_ptr query( @@ -68857,6 +68750,19 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_async_format.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:55: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp: In member function 'void bl2seq::Blastn_QueryBothStrands_SubjBothStrands::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2710:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 2710 | auto_ptr query( @@ -69081,6 +68987,136 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'ncbi::CArgs* blastargs::CString2Args::CreateCArgs(ncbi::blast::CBlastAppArgs&) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3227:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3227 | auto_ptr arg_desc(args.SetCommandLine()); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::PsiBlastAppTestMatrix::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3289:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3289 | auto_ptr args(s2a.CreateCArgs(psiblast_args)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::RpsBlastCBS::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3300:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3300 | auto_ptr args(s2a.CreateCArgs(rpsblast_args)); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckMutuallyExclusiveOptions::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3320:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3320 | auto_ptr args; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckDiscoMegablast::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3327:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3327 | auto_ptr args; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/build_archive.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp:58: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckPercentIdentity::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3351:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3351 | auto_ptr args; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckNoGreedyExtension::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3365:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3365 | auto_ptr args; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckCulling::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3387:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3387 | auto_ptr args; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckQueryCoveragePercent::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3415:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3415 | auto_ptr args; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp: In member function 'void blastargs::CheckMaxHspsPerSubject::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp:3429:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 3429 | auto_ptr args; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: @@ -69105,23 +69141,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -69133,29 +69152,43 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, + inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, + inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, + inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, + inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, + inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, + inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -69200,27 +69233,19 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CSearchResults; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'constexpr void std::_Destroy(_Tp*) [with _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_construct.h:151:22, - inlined from 'static void std::_Destroy_aux< >::__destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*; bool = false]' at /usr/include/c++/12/bits/stl_construct.h:163:19, - inlined from 'void std::_Destroy(_ForwardIterator, _ForwardIterator) [with _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_construct.h:196:11, - inlined from '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:125:17, - inlined from 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = ncbi::CRef*; bool _TrivialValueTypes = false]' at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = ncbi::CRef*; _Tp = ncbi::CRef]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, - inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:601:31, - inlined from 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_results.hpp:307:26: + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/new_allocator.h:181:13, + inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:2019:29, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::pop_back() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:1341:23, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/list.tcc:223:14: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] 504 | RemoveLastReference(newCount); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In copy constructor 'ncbi::blast::CSearchResultSet::CSearchResultSet(const ncbi::blast::CSearchResultSet&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ @@ -69247,6 +69272,33 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: @@ -69280,39 +69332,97 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I../ -DNCBI_APP_BUILT_AS=bdbloader_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blastdb/bdbloader_unit_test.cpp -o bdbloader_unit_test.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie bdbloader_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o bdbloader_unit_test /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f bdbloader_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f bdbloader_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/bdbloader_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/new_allocator.h:181:13, - inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:2019:29, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::pop_back() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:1341:23, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/list.tcc:223:14: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastx LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp: In member function 'int CBlastpApp::x_RunMTBySplitQuery()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:275:17: note: in expansion of macro 'INFO_POST' + 275 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 198 | ERR_POST(severity << message); while(0) + | ^~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:275:17: note: in expansion of macro 'INFO_POST' + 275 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' @@ -69541,16 +69651,10 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -69572,7 +69676,7 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -69597,18 +69701,6 @@ /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f magicblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f magicblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/magicblast_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=deltablast LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' @@ -69616,15 +69708,15 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../core -DNCBI_APP_BUILT_AS=redoalignment_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/redoalignment_unit_test.cpp -o redoalignment_unit_test.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie redoalignment_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o redoalignment_unit_test /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f redoalignment_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f redoalignment_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/redoalignment_unit_test make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=deltablast -w -j12 --jobserver-auth=7,8 all make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=psiblast LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null @@ -69638,30 +69730,6 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=psiblast -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp: In member function 'int CBlastpApp::x_RunMTBySplitQuery()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:275:17: note: in expansion of macro 'INFO_POST' - 275 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 198 | ERR_POST(severity << message); while(0) - | ^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp:275:17: note: in expansion of macro 'INFO_POST' - 275 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:36: @@ -69773,6 +69841,28 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -69883,28 +69973,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=delta_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp -o delta_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie delta_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqalign_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o delta_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f delta_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f delta_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/delta_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rpsblast LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, @@ -69927,50 +70011,8 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=delta_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/delta_unit_test.cpp -o delta_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie delta_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqalign_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o delta_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f delta_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f delta_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/delta_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rpsblast LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=rpsblast -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -70235,22 +70277,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blast_report /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_report.cpp -o blast_report.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blast_report.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blast_report /bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_report /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin /bin/ln -f blast_report /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_report make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp -o blastn_node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp -o blastn_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastn_node.o blastn_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lxformat -lxcleanup -lvalid -lgbseq -lmlacli -lmla -lmedlars -lpubmed -lsubmit -lxregexp -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastn +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastn +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=rpstblastn LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seedtop LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' @@ -70258,14 +70305,16 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=rpstblastn -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp -o seqalignfilter_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp -o blastfmtutil_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp -o build_archive_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp -o vecscreen_run_unit_test.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp -o blast_format_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=seedtop -w -j12 --jobserver-auth=7,8 all +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) @@ -70485,76 +70534,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, @@ -70577,204 +70556,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/new_allocator.h:181:13, - inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:2019:29, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::pop_back() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:1341:23, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/list.tcc:223:14: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqalignfilter_unit_test.o blastfmtutil_unit_test.o build_archive_unit_test.o vecscreen_run_unit_test.o blast_format_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blast_format_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_format_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=seedtop LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=seedtop -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/deltablast.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:35: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=psiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp -o psiblast_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie psiblast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqalign_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o psiblast_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f psiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psiblast_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=tblastn LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -70885,47 +70666,80 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=tblastn -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^ @@ -70944,23 +70758,79 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/new_allocator.h:181:13, + inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [wit ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +h _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:2019:29, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::pop_back() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:1341:23, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/list.tcc:223:14: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/../../api -DNCBI_APP_BUILT_AS=psiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp -o psiblast_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie psiblast_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lseqalign_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o psiblast_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f psiblast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psiblast_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=tblastn LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blast_formatter /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp -o blast_formatter.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blast_formatter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blast_formatter +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_formatter /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blast_formatter /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_formatter +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=tblastn -w -j12 --jobserver-auth=7,8 all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=tblastx LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=tblastx -w -j12 --jobserver-auth=7,8 all In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -71071,13 +70941,7 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -71188,22 +71052,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -71230,47 +71081,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_node.cpp -o blastn_node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_app.cpp -o blastn_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastn_node.o blastn_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lxformat -lxcleanup -lvalid -lgbseq -lmlacli -lmla -lmedlars -lpubmed -lsubmit -lxregexp -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastn -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastn -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -cd app/blast/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=tblastx LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] - 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' - 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' - 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' - 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' - 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast TMPL=tblastx -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -71381,6 +71191,45 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:76: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] + 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:124:55: note: in expansion of macro 'NCBI_BUILD_TIME' + 124 | #define NCBI_SBUILDINFO_DEFAULT_INSTANCE() SBuildInfo(NCBI_BUILD_TIME, NCBI_BUILD_TAG_PROXY) + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:104:5: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_INSTANCE' + 104 | NCBI_SBUILDINFO_DEFAULT_INSTANCE() \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:117:35: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT_IMPL' + 117 | #define NCBI_SBUILDINFO_DEFAULT() NCBI_SBUILDINFO_DEFAULT_IMPL() + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' + 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgictx.hpp:36, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:49, @@ -71403,14 +71252,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp.hpp:68:52: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 68 | CCgiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -71425,53 +71273,24 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpsblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/seqalignfilter_unit_test.cpp -o seqalignfilter_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blastfmtutil_unit_test.cpp -o blastfmtutil_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/build_archive_unit_test.cpp -o build_archive_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/vecscreen_run_unit_test.cpp -o vecscreen_run_unit_test.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/blast_format/blast_format_unit_test.cpp -o blast_format_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/deltablast.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:35: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -71487,13 +71306,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: @@ -71527,41 +71339,56 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -71577,39 +71404,35 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpsblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_options.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/psiblast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -71640,72 +71463,45 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -71737,55 +71533,45 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seqalignfilter_unit_test.o blastfmtutil_unit_test.o build_archive_unit_test.o vecscreen_run_unit_test.o blast_format_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blast_format_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blast_format_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_format_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_aliastool LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 654 | auto_ptr m_GeneInfoReader; @@ -71793,16 +71579,26 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdb_aliastool -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -71842,82 +71638,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -71925,7 +71645,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -71953,102 +71673,23 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp -o blastp_node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp -o blastp_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastp_node.o blastp_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastp -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastp -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_aliastool LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTFORMAT -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blast_formatter /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_formatter.cpp -o blast_formatter.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blast_formatter.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blast_formatter -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blast_formatter /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blast_formatter /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blast_formatter -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdb_aliastool -w -j12 --jobserver-auth=7,8 all -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_convert LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp: In member function 'int CRPSBlastApp::x_RunMTBySplitQuery()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:258:9: note: in expansion of macro 'INFO_POST' - 258 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 198 | ERR_POST(severity << message); while(0) - | ^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:258:9: note: in expansion of macro 'INFO_POST' - 258 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdb_convert -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -72159,6 +71800,407 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:36: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp: In member function 'int CBlastxApp::x_RunMTBySplitQuery()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:274:17: note: in expansion of macro 'INFO_POST' + 274 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 198 | ERR_POST(severity << message); while(0) + | ^~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:274:17: note: in expansion of macro 'INFO_POST' + 274 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_node.cpp -o blastp_node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_app.cpp -o blastp_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastp_node.o blastp_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastp +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastp +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdb_convert LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdb_convert -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpsblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpstblastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:37: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ + ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp:35: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -72269,144 +72311,36 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpstblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/deltablast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -72437,155 +72371,125 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1554 | static auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/psiblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; + ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/deltablast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp: In member function 'int CBlastxApp::x_RunMTBySplitQuery()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:274:17: note: in expansion of macro 'INFO_POST' - 274 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 198 | ERR_POST(severity << message); while(0) - | ^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:274:17: note: in expansion of macro 'INFO_POST' - 274 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpstblastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -72602,77 +72506,54 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/query_data.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/setup_factory.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/prelim_stage.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/local_blast.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:36: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -72699,22 +72580,17 @@ 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpstblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/rpsblast_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:39: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -72746,8 +72622,21 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -72758,9 +72647,8 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -72792,6 +72680,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, @@ -72803,80 +72697,60 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:37: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp: In member function 'int CRPSTBlastnApp::x_RunMTBySplitQuery()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ - | ^~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:251:9: note: in expansion of macro 'INFO_POST' - 251 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - 198 | ERR_POST(severity << message); while(0) - | ^~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' - 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:251:9: note: in expansion of macro 'INFO_POST' - 251 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -72893,28 +72767,16 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastn_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:40: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; | ^~~~~~~~ @@ -72933,6 +72795,15 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastx_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -72951,47 +72822,65 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 62 | typedef auto_ptr TObjectType; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/reader_error_codes.hpp:33, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/mod_reader.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_fasta_input.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/impl/stltypes.hpp:62:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 62 | typedef auto_ptr TObjectType; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -73022,24 +72911,79 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp:46: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/tblastx_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp:39: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blastp_args.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -73052,6 +72996,15 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -73088,65 +73041,47 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/new_allocator.h:181:13, - inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:2019:29, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::pop_back() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:1341:23, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/list.tcc:223:14: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1554 | static auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std:In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -:unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 450 | auto_ptr m_Reg; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -73157,42 +73092,55 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/tabular.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:48: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -73212,20 +73160,23 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 414 | auto_ptr m_SamFormatter; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 449 | auto_ptr m_ConfigFile; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:450:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 450 | auto_ptr m_Reg; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -73242,38 +73193,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp:46: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showdefline.hpp:449:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 449 | auto_ptr m_ConfigFile; | ^~~~~~~~ @@ -73286,58 +73211,81 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp:47: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp: In member function 'int CRPSTBlastnApp::x_RunMTBySplitQuery()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:251:9: note: in expansion of macro 'INFO_POST' + 251 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 198 | ERR_POST(severity << message); while(0) + | ^~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp:251:9: note: in expansion of macro 'INFO_POST' + 251 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidbg.hpp:47, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbimisc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp: In member function 'int CTblastnApp::x_RunMTBySplitQuery()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ + | ^~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:332:17: note: in expansion of macro 'INFO_POST' + 332 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + 198 | ERR_POST(severity << message); while(0) + | ^~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' + 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:332:17: note: in expansion of macro 'INFO_POST' + 332 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:53: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 65 | auto_ptr m_FileStream; | ^~~~~~~~ @@ -73373,28 +73321,27 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiexpt.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/tempstr.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp: In member function 'int CTblastnApp::x_RunMTBySplitQuery()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp: In member function 'int CRPSBlastApp::x_RunMTBySplitQuery()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:197:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 197 | do if (NCBI_NS_NCBI::IsVisibleDiagPostLevel(NCBI_NS_NCBI::eDiag_##severity)) \ | ^~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:332:17: note: in expansion of macro 'INFO_POST' - 332 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:258:9: note: in expansion of macro 'INFO_POST' + 258 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:198:44: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 198 | ERR_POST(severity << message); while(0) | ^~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbidiag.hpp:200:28: note: in expansion of macro 'SEVERITY_POST' 200 | #define INFO_POST(message) SEVERITY_POST(Info, message) | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp:332:17: note: in expansion of macro 'INFO_POST' - 332 | INFO_POST("Batch Size: " << batch_size); - | ^~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp:258:9: note: in expansion of macro 'INFO_POST' + 258 | INFO_POST("Batch Size: " << batch_size); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -73405,13 +73352,72 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blast_format.hpp:414:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 414 | auto_ptr m_SamFormatter; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:42: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp: In member function 'virtual void CSeedTopApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr arg_desc(new CArgDescriptions); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: @@ -73439,36 +73445,57 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blast_app_util.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp: In member function 'virtual void CBlastDBAliasApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp:150:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 150 | auto_ptr arg_desc(new CArgDescriptions); | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp: In member function 'virtual void CSeedTopApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr arg_desc(new CArgDescriptions); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp:49: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -73489,9 +73516,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here 202 | TValue result; | ^~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -73536,6 +73563,22 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/new_allocator.h:181:13, + inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:2019:29, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::pop_back() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:1341:23, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/list.tcc:223:14: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp: In member function 'virtual void CBlastdbConvertApp::Init()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp:119:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 119 | auto_ptr arg_desc(new CArgDescriptions); @@ -73543,13 +73586,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp: In member function 'virtual void CBlastDBAliasApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp:150:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 150 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp -o blastx_node.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp -o blastx_app.o @@ -73568,6 +73604,22 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdb_path -w -j12 --jobserver-auth=7,8 all +In member function 'void ncbi::CObject::RemoveReference() const', + inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, + inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, + inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, + inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/new_allocator.h:181:13, + inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:2019:29, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::pop_back() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:1341:23, + inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/list.tcc:223:14: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] + 504 | RemoveLastReference(newCount); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here + 202 | TValue result; + | ^~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:35: @@ -73697,6 +73749,38 @@ make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdbcheck -w -j12 --jobserver-auth=7,8 all +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:38: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:34: @@ -73808,41 +73892,22 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In member function 'void ncbi::CObject::RemoveReference() const', - inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, - inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, - inlined from 'ncbi::CRef::~CRef() [with C = ncbi::blast::CBlastNodeMsg; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:695:18, - inlined from 'void std::__new_allocator<_Tp>::destroy(_Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/new_allocator.h:181:13, - inlined from 'static void std::allocator_traits >::destroy(allocator_type&, _Up*) [with _Up = ncbi::CRef; _Tp = std::_List_node >]' at /usr/include/c++/12/bits/alloc_traits.h:535:15, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:2019:29, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::pop_back() [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_list.h:1341:23, - inlined from 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/list.tcc:223:14: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:504:28: warning: 'result' may be used uninitialized [-Wmaybe-uninitialized] - 504 | RemoveLastReference(newCount); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp: In member function 'void std::__cxx11::list<_Tp, _Alloc>::_M_default_append(size_type) [with _Tp = ncbi::CRef; _Alloc = std::allocator >]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:202:12: note: 'result' was declared here - 202 | TValue result; - | ^~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=psiblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp -o psiblast_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie psiblast_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o psiblast -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psiblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f psiblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psiblast -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp -o rpstblastn_node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp -o rpstblastn_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie rpstblastn_node.o rpstblastn_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o rpstblastn -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rpstblastn +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=seedtop /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp -o seedtop_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seedtop_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o seedtop +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seedtop /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f seedtop /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seedtop make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdbcmd LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdbcp LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' @@ -73851,16 +73916,35 @@ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdbcmd -w -j12 --jobserver-auth=7,8 all -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdbcp -w -j12 --jobserver-auth=7,8 all -make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:39: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -73971,6 +74055,59 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=psiblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_app.cpp -o psiblast_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie psiblast_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o psiblast +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f psiblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f psiblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/psiblast +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=blastdbcp LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_node.cpp -o rpstblastn_node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_app.cpp -o rpstblastn_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie rpstblastn_node.o rpstblastn_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o rpstblastn +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f rpstblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rpstblastn +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=blastdbcp -w -j12 --jobserver-auth=7,8 all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=makeblastdb LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=makeblastdb -w -j12 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=tblastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp -o tblastx_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie tblastx_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o tblastx +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f tblastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f tblastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/tblastx +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=makeprofiledb LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: warning: -j12 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp:31: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -74081,64 +74218,48 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:38: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +make[5]: warning: -j12 forced in submake: resetting jobserver mode. +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 108 | auto_ptr m_memGi2GeneFile; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 111 | auto_ptr m_memGene2OffsetFile; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 114 | auto_ptr m_memGi2OffsetFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 117 | auto_ptr m_memGene2GiFile; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=tblastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastx_app.cpp -o tblastx_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie tblastx_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o tblastx -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f tblastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f tblastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/tblastx -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=makeblastdb LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: warning: -j12 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=makeblastdb -w -j12 --jobserver-auth=7,8 all +/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=makeprofiledb -w -j12 --jobserver-auth=7,8 all make[5]: warning: -j12 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:38: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -74249,130 +74370,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:39: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdb_convert /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp -o blastdb_convert.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastdb_convert.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lwritedb -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdb_convert -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_convert /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdb_convert /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_convert -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -cd app/blastdb/ && /usr/bin/make -w -j12 --jobserver-auth=5,6 APP_PROJ=makeprofiledb LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=seedtop /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/seedtop_app.cpp -o seedtop_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie seedtop_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o seedtop -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f seedtop /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f seedtop /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/seedtop -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:44: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/make -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/Makefile.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb TMPL=makeprofiledb -w -j12 --jobserver-auth=7,8 all -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:108:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 108 | auto_ptr m_memGi2GeneFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:111:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 111 | auto_ptr m_memGene2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:114:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 114 | auto_ptr m_memGi2OffsetFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/gene_info_reader/gene_info_reader.hpp:117:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 117 | auto_ptr m_memGene2GiFile; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j12 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:36: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version.hpp:142:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] @@ -74483,17 +74480,85 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:94:53: note: in expansion of macro 'NCBI_SBUILDINFO_DEFAULT' 94 | CNcbiApplication(const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdb_convert /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_convert.cpp -o blastdb_convert.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastdb_convert.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lwritedb -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdb_convert +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_convert /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdb_convert /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_convert +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp -o tblastn_node.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp -o tblastn_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie tblastn_node.o tblastn_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o tblastn +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/tblastn +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=deltablast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp -o deltablast_app.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie deltablast_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o deltablast +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f deltablast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f deltablast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/deltablast +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdb_aliastool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp -o blastdb_aliastool.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastdb_aliastool.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lwritedb -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdb_aliastool +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_aliastool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdb_aliastool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_aliastool +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp: In member function 'virtual void CBlastDBCmdApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:73:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 73 | auto_ptr arg_desc(new CArgDescriptions); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:44: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -74530,13 +74595,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp: In member function 'virtual void CBlastDBCmdApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp:73:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 73 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:47: @@ -74546,12 +74604,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdb_aliastool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_aliastool.cpp -o blastdb_aliastool.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastdb_aliastool.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lwritedb -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdb_aliastool -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_aliastool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdb_aliastool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_aliastool -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -74564,7 +74616,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -74574,8 +74625,8 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp:32: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -74607,7 +74658,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp:41: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -74617,9 +74668,9 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version_api.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/version.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ @@ -74635,26 +74686,19 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=deltablast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.cpp -o deltablast_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie deltablast_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o deltablast -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f deltablast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f deltablast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/deltablast -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/seqdb_writer/build_db.hpp:44, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/masked_range_set.hpp:33, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/masked_range_set.cpp:31: @@ -74669,20 +74713,54 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:37: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/version_api.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/version.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:36: +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 528 | mutable auto_ptr m_AnnotNames; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:43: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 515 | auto_ptr m_MappingCollector; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, @@ -74730,15 +74808,6 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:54, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/blastdb_dataextract.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/blast/blastdb_format/seq_formatter.hpp:38, @@ -74749,15 +74818,16 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:42: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 364 | auto_ptr &feat_ci, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 869 | auto_ptr m_Gen; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -74770,18 +74840,25 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_node.cpp -o tblastn_node.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/tblastn_app.cpp -o tblastn_app.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie tblastn_node.o tblastn_app.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_app_util -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxregexp -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o tblastn -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f tblastn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/tblastn -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:50: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp: In member function 'virtual void CBlastDbCheckApplication::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:147:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 147 | auto_ptr arg_desc(new CArgDescriptions); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp: In member function 'virtual void BlastdbCopyApplication::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp:107:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 107 | auto_ptr arg_desc(new CArgDescriptions); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/indexer.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/create_defline.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -74798,16 +74875,31 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp: In member function 'virtual void BlastdbCopyApplication::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp:107:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 107 | auto_ptr arg_desc(new CArgDescriptions); +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:42: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:364:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 364 | auto_ptr &feat_ci, + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:869:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 869 | auto_ptr m_Gen; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp: In member function 'virtual void CBlastDbCheckApplication::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp:147:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 147 | auto_ptr arg_desc(new CArgDescriptions); +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdb_path /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp -o blastdb_path.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastdb_path.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdb_path +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_path /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdb_path /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_path +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:63: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 65 | auto_ptr m_FileStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -74832,8 +74924,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:59: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 156 | auto_ptr m_DecompressIStream; | ^~~~~~~~ @@ -74846,12 +74936,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 743 | auto_ptr m_ObjectStream; @@ -74886,54 +74970,55 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1554 | static auto_ptr m_GeneInfoReader; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/scope.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/sseqloc.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:43: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 515 | auto_ptr m_MappingCollector; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbicntr.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiargs.hpp:84, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp_api.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:42: /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 523 | auto_ptr m_AnnotLocsSet; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:528:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 528 | mutable auto_ptr m_AnnotNames; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:59: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 156 | auto_ptr m_DecompressIStream; + | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | auto_ptr m_CompressOStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 743 | auto_ptr m_ObjectStream; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp: In member function 'virtual void CBlastDBCmdApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp:863:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 863 | auto_ptr arg_desc(new CArgDescriptions); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 875 | auto_ptr m_DecompressIStream; | ^~~~~~~~ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; @@ -74978,62 +75063,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp: In member function 'virtual void CBlastDBCmdApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcmd.cpp:863:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 863 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_scope_src.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input.hpp:40: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 277 | auto_ptr m_PluginManager; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp: In member function 'virtual void CMakeBlastDBApp::Init()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:210:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 210 | auto_ptr arg_desc(new CArgDescriptions); - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdb_path /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.cpp -o blastdb_path.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastdb_path.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdb_path -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdb_path /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdb_path /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdb_path -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:63: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_input_aux.hpp:65:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 65 | auto_ptr m_FileStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:156:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 156 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:157:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | auto_ptr m_CompressOStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 875 | auto_ptr m_DecompressIStream; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:45: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/remote_blast.hpp:743:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 743 | auto_ptr m_ObjectStream; @@ -75068,19 +75097,6 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1554 | static auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 654 | auto_ptr m_GeneInfoReader; - | ^~~~~~~~ -/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here - 64 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp: In member function 'void CMakeProfileDBApp::x_SetupArgDescriptions()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:383:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 383 | auto_ptr arg_desc(new CArgDescriptions); @@ -75088,6 +75104,12 @@ /usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here 64 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/align_format_util.hpp:1554:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1554 | static auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp: In member function 'void CMakeProfileDBApp::x_InitRPSDbInfo(CRPS_DbInfo&, Int4, Int4)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:758:6: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 758 | if (!rpsDbInfo.aux_file.is_open()) @@ -75113,6 +75135,27 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp:1382:25: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long unsigned int'} [-Wsign-compare] 1382 | if (m_NumOfVols == m_VolNames.size()) { | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/blastfmtutil.hpp:41: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/align_format/showalign.hpp:654:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 654 | auto_ptr m_GeneInfoReader; + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp: In member function 'virtual void CMakeBlastDBApp::Init()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp:210:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 210 | auto_ptr arg_desc(new CArgDescriptions); + | ^~~~~~~~ +/usr/include/c++/12/bits/unique_ptr.h:64:28: note: declared here + 64 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=bl2seq_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp -o bl2seq_unit_test.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie bl2seq_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o bl2seq_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f bl2seq_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f bl2seq_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/bl2seq_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=blastdbcp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcp.cpp -o blastdbcp.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie blastdbcp.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lwritedb -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -lxser -lxcgi -lxhtml -lxconnect -lxutil -lxncbi -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o blastdbcp @@ -75134,13 +75177,6 @@ /bin/ln -f blastdbcmd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdbcmd make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=bl2seq_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp -o bl2seq_unit_test.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie bl2seq_unit_test.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lblast_unit_test_util -ltest_boost -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lxobjsimple -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -lm -lpthread -o bl2seq_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f bl2seq_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f bl2seq_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/bl2seq_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' In member function 'void ncbi::CObject::RemoveReference() const', inlined from 'void ncbi::CObjectCounterLocker::Unlock(const ncbi::CObject*) const' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:532:28, inlined from 'void ncbi::CRef::Reset() [with C = ncbi::blast::CPsiBlastArgs; Locker = ncbi::CObjectCounterLocker]' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiobj.hpp:778:38, @@ -75155,6 +75191,13 @@ 202 | TValue result; | ^~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makeprofiledb /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp -o makeprofiledb.o +/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie makeprofiledb.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lwritedb -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o makeprofiledb +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f makeprofiledb /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f makeprofiledb /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/makeprofiledb +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makeblastdb /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeblastdb.cpp -o makeblastdb.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makeblastdb /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/masked_range_set.cpp -o masked_range_set.o /usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie makeblastdb.o masked_range_set.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lwritedb -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o makeblastdb @@ -75162,13 +75205,6 @@ /bin/ln -f makeblastdb /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/makeblastdb make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -DNCBI_APP_BUILT_AS=makeprofiledb /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/makeprofiledb.cpp -o makeprofiledb.o -/usr/bin/g++ -std=gnu++14 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -gdwarf-3 -O2 -fPIE -pie makeprofiledb.o -Wl,-rpath-link,/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -L/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -lwritedb -lblastinput -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lxblastformat -lalign_format -ltaxon1 -lblastdb_format -lgene_info -lxformat -lxcleanup -lgbseq -lxobjedit -leutils -legquery -lelink -lepost -lesearch -lespell -lesummary -leinfo -luilist -lehistory -lxobjread -lvariation -lsubmit -lxlogging -ltaxon3 -lmlacli -lmla -lmedlars -lpubmed -lvalid -lxalnmgr -lblastxml -lblastxml2 -lxcgi -lxhtml -lproteinkmer -lxblast -lblast -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjread -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -lncbi_xloader_genbank -lncbi_xreader_id1 -lncbi_xreader_id2 -lncbi_xreader_cache -lncbi_xreader -lxconnect -lid1 -lid2 -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lxcompress -llmdb -lpthread -lz -lbz2 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lm -lpthread -o makeprofiledb -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f makeprofiledb /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f makeprofiledb /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/makeprofiledb -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastinput_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blastinput_unit_test.cpp -o blastinput_unit_test.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=blastinput_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/unit_test/blast_scope_src_unit_test.cpp -o blast_scope_src_unit_test.o @@ -76818,18 +76854,18 @@ Testing, please wait... -OK -- [serial/datatool] datatool.sh (real 0.70, user 0.19, sys 0.04) +OK -- [serial/datatool] datatool.sh (real 0.73, user 0.46, sys 0.20) SKP -- [serial/datatool] datatool_xml.sh -ERR [200] -- [objtools/blast/gene_info_reader/unit_test] gene_info_unit_test (real 0.11, user 0.01, sys 0.01) -ERR [200] -- [algo/blast/proteinkmer/unit_test] proteinkmer_unit_test (real 0.23, user 0.04, sys 0.03) -ERR [200] -- [algo/blast/unit_tests/api] blastdiag_unit_test (real 0.15, user 0.02, sys 0.00) -ERR [200] -- [algo/blast/unit_tests/api] aascan_unit_test (real 0.09, user 0.04, sys 0.01) +OK -- [objtools/blast/gene_info_reader/unit_test] gene_info_unit_test (real 0.08, user 0.03, sys 0.03) +ERR [200] -- [algo/blast/proteinkmer/unit_test] proteinkmer_unit_test (real 0.16, user 0.08, sys 0.06) +ERR [200] -- [algo/blast/unit_tests/api] blastdiag_unit_test (real 0.05, user 0.04, sys 0.02) +ERR [200] -- [algo/blast/unit_tests/api] aascan_unit_test (real 0.09, user 0.07, sys 0.03) ABS -- [misc/jsonwrapp/test] test_jsonwrapp ABS -- [misc/jsonwrapp/test] test_jsonwrapp10 -Succeeded : 1 +Succeeded : 2 Timeout : 0 -Failed : 4 +Failed : 3 Absent : 3 make[3]: *** [/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.meta_r:46: check_r.real] Error 7 @@ -76840,43 +76876,17 @@ make[1]: [debian/rules:81: override_dh_auto_test] Error 25 (ignored) c++/BUILD/build/check.sh concat_err cat c++/BUILD/build/check.sh.out_err -ERR [200] -- [objtools/blast/gene_info_reader/unit_test] gene_info_unit_test (real 0.11, user 0.01, sys 0.01) -ERR [200] -- [algo/blast/proteinkmer/unit_test] proteinkmer_unit_test (real 0.23, user 0.04, sys 0.03) -ERR [200] -- [algo/blast/unit_tests/api] blastdiag_unit_test (real 0.15, user 0.02, sys 0.00) -ERR [200] -- [algo/blast/unit_tests/api] aascan_unit_test (real 0.09, user 0.04, sys 0.01) - - -====================================================================== -gene_info_unit_test -====================================================================== - -3648449/000/0000/PB 6197ABC17A7A2F81 0001/0001 2025-02-08T18:31:20.689853 codethink03-arm64 UNK_CLIENT UNK_SESSION gene_info_unit_test start /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test/gene_info_unit_test -3648449/000/0000/PB 6197ABC17A7A2F81 0002/0002 2025-02-08T18:31:20.690031 codethink03-arm64 UNK_CLIENT UNK_SESSION gene_info_unit_test extra ncbi_app_username=pbuilder1&ncbi_app_path=/build/reproducible-path/ncbi-blast%2B-2.12.0%2Bds/c%2B%2B/BUILD/build/objtools/blast/gene_info_reader/unit_test/gene_info_unit_test&ncbi_app_build_date=Feb+10+2022+12:17:56&ncbi_app_package_name=blast&ncbi_app_package_version=2.12.0&ncbi_app_package_date=Feb+10+2022+12:17:56&ncbi_app_version=2.12.0 -Running 4 test cases... - -*** No errors detected -Executed 4 test cases. -Test setup error: - -*** No errors detected -3648449/000/0000/PE 6197ABC17A7A2F81 0003/0003 2025-02-08T18:31:20.691826 codethink03-arm64 UNK_CLIENT UNK_SESSION gene_info_unit_test stop 200 0.004204034 -real 0.11 -user 0.01 -sys 0.01 -Start time : 02/08/2025 18:31:20 -Stop time : 02/08/2025 18:31:20 -Load averages: 23.45 29.72 22.31 - -@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@ -@@@ EXIT CODE: 200 +ERR [200] -- [algo/blast/proteinkmer/unit_test] proteinkmer_unit_test (real 0.16, user 0.08, sys 0.06) +ERR [200] -- [algo/blast/unit_tests/api] blastdiag_unit_test (real 0.05, user 0.04, sys 0.02) +ERR [200] -- [algo/blast/unit_tests/api] aascan_unit_test (real 0.09, user 0.07, sys 0.03) ====================================================================== proteinkmer_unit_test ====================================================================== -3648599/000/0000/PB 6197AC577A7A2F91 0001/0001 2025-02-08T18:31:21.088699 codethink03-arm64 UNK_CLIENT UNK_SESSION proteinkmer_unit_test start /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test -3648599/000/0000/PB 6197AC577A7A2F91 0002/0002 2025-02-08T18:31:21.088911 codethink03-arm64 UNK_CLIENT UNK_SESSION proteinkmer_unit_test extra ncbi_app_username=pbuilder1&ncbi_app_path=/build/reproducible-path/ncbi-blast%2B-2.12.0%2Bds/c%2B%2B/BUILD/build/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test&ncbi_app_build_date=Feb+10+2022+12:17:56&ncbi_app_package_name=blast&ncbi_app_package_version=2.12.0&ncbi_app_package_date=Feb+10+2022+12:17:56&ncbi_app_version=2.12.0 +1484102/000/0000/PB AF28A54659A9C901 0001/0001 2024-01-07T12:44:00.038076 i-capture-the-hostname UNK_CLIENT UNK_SESSION proteinkmer_unit_test start /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test +1484102/000/0000/PB AF28A54659A9C901 0002/0002 2024-01-07T12:44:00.038322 i-capture-the-hostname UNK_CLIENT UNK_SESSION proteinkmer_unit_test extra ncbi_app_username=pbuilder2&ncbi_app_path=/build/reproducible-path/ncbi-blast%2B-2.12.0%2Bds/c%2B%2B/BUILD/build/algo/blast/proteinkmer/unit_test/proteinkmer_unit_test&ncbi_app_build_date=Feb+10+2022+12:17:56&ncbi_app_package_name=blast&ncbi_app_package_version=2.12.0&ncbi_app_package_date=Feb+10+2022+12:17:56&ncbi_app_version=2.12.0 Running 17 test cases... *** No errors detected @@ -76884,13 +76894,13 @@ Test setup error: *** No errors detected -3648599/000/0000/PE 6197AC577A7A2F91 0003/0003 2025-02-08T18:31:21.093643 codethink03-arm64 UNK_CLIENT UNK_SESSION proteinkmer_unit_test stop 200 0.015272855 -real 0.23 -user 0.04 -sys 0.03 -Start time : 02/08/2025 18:31:20 -Stop time : 02/08/2025 18:31:21 -Load averages: 23.45 29.72 22.31 +1484102/000/0000/PE AF28A54659A9C901 0003/0003 2024-01-07T12:44:00.050290 i-capture-the-hostname UNK_CLIENT UNK_SESSION proteinkmer_unit_test stop 200 0.035103082 +real 0.16 +user 0.08 +sys 0.06 +Start time : 01/07/2024 12:43:59 +Stop time : 01/07/2024 12:44:00 +Load averages: 15.21 30.31 30.73 @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@ @@@ EXIT CODE: 200 @@ -76900,8 +76910,8 @@ blastdiag_unit_test ====================================================================== -3648781/000/0000/PB 6197AD0D7A7A2F91 0001/0001 2025-02-08T18:31:21.351454 codethink03-arm64 UNK_CLIENT UNK_SESSION blastdiag_unit_test start /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api/blastdiag_unit_test -3648781/000/0000/PB 6197AD0D7A7A2F91 0002/0002 2025-02-08T18:31:21.351634 codethink03-arm64 UNK_CLIENT UNK_SESSION blastdiag_unit_test extra ncbi_app_username=pbuilder1&ncbi_app_path=/build/reproducible-path/ncbi-blast%2B-2.12.0%2Bds/c%2B%2B/BUILD/build/algo/blast/unit_tests/api/blastdiag_unit_test&ncbi_app_build_date=Feb+10+2022+12:17:56&ncbi_app_package_name=blast&ncbi_app_package_version=2.12.0&ncbi_app_package_date=Feb+10+2022+12:17:56&ncbi_app_version=2.12.0 +1484222/000/0000/PB AF28A5BE59A9C901 0001/0001 2024-01-07T12:44:00.205765 i-capture-the-hostname UNK_CLIENT UNK_SESSION blastdiag_unit_test start /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api/blastdiag_unit_test +1484222/000/0000/PB AF28A5BE59A9C901 0002/0002 2024-01-07T12:44:00.206101 i-capture-the-hostname UNK_CLIENT UNK_SESSION blastdiag_unit_test extra ncbi_app_username=pbuilder2&ncbi_app_path=/build/reproducible-path/ncbi-blast%2B-2.12.0%2Bds/c%2B%2B/BUILD/build/algo/blast/unit_tests/api/blastdiag_unit_test&ncbi_app_build_date=Feb+10+2022+12:17:56&ncbi_app_package_name=blast&ncbi_app_package_version=2.12.0&ncbi_app_package_date=Feb+10+2022+12:17:56&ncbi_app_version=2.12.0 Running 3 test cases... *** No errors detected @@ -76909,13 +76919,13 @@ Test setup error: *** No errors detected -3648781/000/0000/PE 6197AD0D7A7A2F91 0003/0003 2025-02-08T18:31:21.355189 codethink03-arm64 UNK_CLIENT UNK_SESSION blastdiag_unit_test stop 200 0.005256891 -real 0.15 -user 0.02 -sys 0.00 -Start time : 02/08/2025 18:31:21 -Stop time : 02/08/2025 18:31:21 -Load averages: 23.45 29.72 22.31 +1484222/000/0000/PE AF28A5BE59A9C901 0003/0003 2024-01-07T12:44:00.211275 i-capture-the-hostname UNK_CLIENT UNK_SESSION blastdiag_unit_test stop 200 0.008939981 +real 0.05 +user 0.04 +sys 0.02 +Start time : 01/07/2024 12:44:00 +Stop time : 01/07/2024 12:44:00 +Load averages: 15.21 30.31 30.73 @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@ @@@ EXIT CODE: 200 @@ -76925,8 +76935,8 @@ aascan_unit_test ====================================================================== -3649020/000/0000/PB 6197ADFC7A7A2F91 0001/0001 2025-02-08T18:31:21.736796 codethink03-arm64 UNK_CLIENT UNK_SESSION aascan_unit_test start /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api/aascan_unit_test -3649020/000/0000/PB 6197ADFC7A7A2F91 0002/0002 2025-02-08T18:31:21.736981 codethink03-arm64 UNK_CLIENT UNK_SESSION aascan_unit_test extra ncbi_app_username=pbuilder1&ncbi_app_path=/build/reproducible-path/ncbi-blast%2B-2.12.0%2Bds/c%2B%2B/BUILD/build/algo/blast/unit_tests/api/aascan_unit_test&ncbi_app_build_date=Feb+10+2022+12:17:56&ncbi_app_package_name=blast&ncbi_app_package_version=2.12.0&ncbi_app_package_date=Feb+10+2022+12:17:56&ncbi_app_version=2.12.0 +1484325/000/0000/PB AF28A62559A9C901 0001/0001 2024-01-07T12:44:00.413733 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test start /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api/aascan_unit_test +1484325/000/0000/PB AF28A62559A9C901 0002/0002 2024-01-07T12:44:00.413948 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test extra ncbi_app_username=pbuilder2&ncbi_app_path=/build/reproducible-path/ncbi-blast%2B-2.12.0%2Bds/c%2B%2B/BUILD/build/algo/blast/unit_tests/api/aascan_unit_test&ncbi_app_build_date=Feb+10+2022+12:17:56&ncbi_app_package_name=blast&ncbi_app_package_version=2.12.0&ncbi_app_package_date=Feb+10+2022+12:17:56&ncbi_app_version=2.12.0 Running 4 test cases... *** No errors detected @@ -76934,13 +76944,13 @@ Test setup error: *** No errors detected -3649020/000/0000/PE 6197ADFC7A7A2F91 0003/0003 2025-02-08T18:31:21.739409 codethink03-arm64 UNK_CLIENT UNK_SESSION aascan_unit_test stop 200 0.005709171 +1484325/000/0000/PE AF28A62559A9C901 0003/0003 2024-01-07T12:44:00.417574 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test stop 200 0.008247137 real 0.09 -user 0.04 -sys 0.01 -Start time : 02/08/2025 18:31:21 -Stop time : 02/08/2025 18:31:21 -Load averages: 23.45 29.72 22.31 +user 0.07 +sys 0.03 +Start time : 01/07/2024 12:44:00 +Stop time : 01/07/2024 12:44:00 +Load averages: 15.21 30.31 30.73 @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@ @@@ EXIT CODE: 200 @@ -77165,9 +77175,9 @@ dh_gencontrol -O--sourcedirectory=c\+\+ dh_md5sums -O--sourcedirectory=c\+\+ dh_builddeb -O--sourcedirectory=c\+\+ -dpkg-deb: building package 'ncbi-blast+' in '../ncbi-blast+_2.12.0+ds-3_arm64.deb'. -dpkg-deb: building package 'ncbi-blast+-dbgsym' in '../ncbi-blast+-dbgsym_2.12.0+ds-3_arm64.deb'. dpkg-deb: building package 'ncbi-blast+-legacy' in '../ncbi-blast+-legacy_2.12.0+ds-3_all.deb'. +dpkg-deb: building package 'ncbi-blast+-dbgsym' in '../ncbi-blast+-dbgsym_2.12.0+ds-3_arm64.deb'. +dpkg-deb: building package 'ncbi-blast+' in '../ncbi-blast+_2.12.0+ds-3_arm64.deb'. dpkg-genbuildinfo --build=binary -O../ncbi-blast+_2.12.0+ds-3_arm64.buildinfo dpkg-genchanges --build=binary -O../ncbi-blast+_2.12.0+ds-3_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -77176,12 +77186,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/855645/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/855645/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/3296749 and its subdirectories -I: Current time: Sat Feb 8 06:34:04 -12 2025 -I: pbuilder-time-stamp: 1739039644 +I: removing directory /srv/workspace/pbuilder/855645 and its subdirectories +I: Current time: Mon Jan 8 02:46:37 +14 2024 +I: pbuilder-time-stamp: 1704631597